# Patent

## Title
Human CGRP receptor binding proteins

## Abstract

Antigen binding proteins that bind to human CGRP receptor (CGRP R) are provided. Nucleic acids encoding the antigen binding protein, vectors, and cells encoding the same are also provided. The antigen binding proteins can inhibit binding of CGRP R to CGRP, and are useful in a number of CGRP R related disorders, including the treatment and/or prevention of migraine headaches.

## Background
CROSS-REFERENCE TO RELATED APPLICATIONS
The present application claims benefit of priority to U.S. Ser. No. 61/203,569, filed 23 Dec. 2008 and U.S. Ser. No. 61/264,622, filed 25 Nov. 2009.


BACKGROUND
The instant application contains a Sequence Listing which has been submitted via EFS-Web and is hereby incorporated by reference in its entirety. Said ASCII copy, created on Dec. 14, 2009, is named A14720US.txt, and is 293,258 bytes in size
The calcitonin superfamily of peptides includes at least five known members: calcitonin, amylin, adrenomedullin, and two calcitonin gene-related peptides (“CGRP”), CGRP1 (also known as ctCGRP, or CGRP) and CGRP2 (also known as βCGRP). CGRP is a 37 amino acid vasoactive neuropeptide expressed in both the central and peripheral nervous systems, and has been shown to be a potent vasodilator in the periphery, where CGRP-containing neurons are closely associated with blood vessels. CGRP-mediated vasodilatation is also associated with neurogenic inflammation, as part of a cascade of events that results in extravasation of plasma and vasodialation of the microvasculature and is present in migraine. Amy1 in also has specific binding sites in the CNS and is thought to regulate gastric emptying and have a role in carbohydrate metabolism. Adrenomedullin is a potent vasodilator. adrenomedullin has specific receptors on astrocytes and its messenger RNA is upregulated in CNS tissues that are subject to ischemia. (Zimmermann, et al., Identification of adrenomedullin receptors in cultured rat astrocytes and in neuroblastoma glioma hybrid cells (NG108-15), Brain Res., 724:238-245 (1996); Wang et al., Discovery of adrenomedullin in rat ischemic cortex and evidence for its role in exacerbating focal brain ischemic damage, Proc. Natl. Acad. Sci. USA, 92:11480-11484 (1995)).
Calcitonin is involved in the control of bone metabolism and is also active in the central nervous system (CNS). The biological activities of CGRP include the regulation of neuromuscular junctions, of antigen presentation within the immune system, of vascular tone and of sensory neurotransmission. (Poyner, D. R., Calcitonin gene-related peptide: multiple actions, multiple receptors, Pharmacol. Ther., 56:23-51 (1992); Muff et al., Calcitonin, calcitonin gene related peptide, adrenomedullin and amylin: homologous peptides, separate receptors and overlapping biological actions, Eur. J. Endocrinol., 133: 17-20 (1995)). Three calcitonin receptor stimulating peptides (CRSPs) have also been identified in a number of mammalian species; the CRSPs may form a new subfamily in the CGRP family. (Katafuchi, T and Minamino, N, Structure and biological properties of three calcitonin receptor-stimulating peptides, novel members of the calcitonin gene-related peptide family, Peptides, 25(11):2039-2045 (2004)).
The calcitonin superfamily peptides act through seven-transmembrane-domain G-protein-coupled receptors (GPCRs). The calcitonin receptor (“CT”, “CTR” or “CT receptor”) and CGRP receptors are type II (“family B”) GPCRs, which family includes other GPCRs that recognize regulatory peptides such as secretin, glucagon and vasoactive intestinal polypeptide (VIP). The best characterized splice variants of human calcitonin receptor differ depending on the presence (formerly CTRII+ or CTR1, now known as CT(b)) or absence (the major splice variant, formerly CTRII− or CTR2, now known as CT(a)) of 16 amino acids in the first intracellular loop. (Gorn et al., Expression of two human skeletal calcitonin receptor isoforms cloned from a giant cell tumor of bone: the first intracellular domain modulates ligand binding and signal transduction, J. Clin. Invest., 95:2680-2691 (1995); Hay et al., Amylin receptors: molecular composition and pharmacology, Biochem. Soc. Trans., 32:865-867 (2004); Poyner et al., 2002). The existence of at least two CGRP receptor subtypes had been proposed from differential antagonist affinities and agonist potencies in a variety of in vivo and in vitro bioassays. (Dennis et al., CGRP8-37, A calcitonin gene-related peptide antagonist revealing calcitonin gene-related peptide receptor heterogeneity in brain and periphery, J. Pharmacol. Exp. Ther., 254:123-128 (1990); Dennis et al., Structure-activity profile of calcitonin gene-related peptide in peripheral and brain tissues. Evidence for multiplicity, J. Pharmacol. Exp. Ther., 251:718-725 (1989); Dumont et al., A potent and selective CGRP2 agonist, [Cys(Et)2,7]hCGRP: comparison in prototypical CGRP1 and CGRP2 in vitro assays, Can. J. Physiol. Pharmacol., 75:671-676 (1997)).
The CGRP1 receptor subtype was found to be sensitive to the antagonist fragment CGRP(8-37). (Chiba et al., Calcitonin gene-related peptide receptor antagonist human CGRP-(8-37), Am. J. Physiol., 256:E331-E335 (1989); Dennis et al. (1990); Mimeault et al., Comparative affinities and antagonistic potencies of various human calcitonin gene-related peptide fragments on calcitonin gene-related peptide receptors in brain and periphery, J. Pharmacol. Exp. Ther., 258:1084-1090 (1991)). By contrast, the CGRP2 receptor was sensitive to linear human CGRP (hCGRP) analogs, in which the cysteine residues at positions 2 and 7 were derivatized (e.g., with acetoaminomethyl [Cys(ACM)2,7] or ethylamide [Cys(Et)2,7]) but CGRP2 receptor was insensitive to fragment CGRP(8-37). (Dennis et al. (1989); Dennis et al. (1990); Dumont et al. (1997)).
Ligand specificity of calcitonin receptor and calcitonin-like receptor (“CL”, “CLR” or “CRLR”) depend on the co-expression of members of a family of accessory proteins called the receptor activity modifying proteins (RAMPs). The RAMP family includes three polypeptides (RAMP1, RAMP2 and RAMP3) that act as receptor modulators that determine the ligand specificity of receptors for the calcitonin family members. RAMPs are type I transmembrane proteins that share about 30% amino acid sequence identity and a common predicted topology, with short cytoplasmic C-termini, one trans-membrane domain and large extracellular N-termini that are responsible for the specificity. (McLatchie et al., (1998) RAMPs regulate the transport and ligand specificity of the calcitonin-receptor-like receptor, Nature, 393:333-339; Fraser et al., (1999) The amino terminus of receptor activity modifying proteins is a critical determinant of glycosylation state and ligand binding of calcitonin receptor-like receptor, Molecular Pharmacology, 55:1054-1059).
In 1998, the CGRP1 receptor was identified as a heterodimer composed of a novel single transmembrane domain accessory protein, receptor activity-modifying protein 1 (RAMP1), and CRLR. (McLatchie et al., supra). Cross-linking experiments suggested the CGRP receptor consisted of a one-to-one stoichiometric arrangement of CRLR and RAMP1 (Hilairet et al. JBC 276, 42182-42190 (2001)), more recent studies using several methodologies such as BRET and BiFC revealed that the functional CGRP receptor complex may be composed of asymmetric homo-oligomer of CRLR and monomer of RAMP1 (Heroux et al. JBC 282, 31610-31620 (2007)).
A purified CRLR N-terminal domain has been shown to specifically bind 125I-CGRP (Chauhan et al. Biochemistry 44, 782 (2005)), confirming the important and direct interaction between the CRLR with CGRP ligand. In particular, Leu 24 and Leu 34 of CRLR are believed to constitute the docking site of the C-terminus Phe37 of CGRP (Banerjee et al. BMC Pharmacol. 6, 9 (2006)). Furthermore, Koller et al. (FEBS Lett. 531, 464-468 (2002)) obtained evidence that that the N-terminal 18 amino acid residues of CRLR contributes the selective interaction with CGRP or adrenomedullin, and Ittner et al (Biochemistry 44, 5749-5754 (2005)) suggested that the N-terminal amino acid residues 23-60 of CRLR mediate association with RAMP1.
A structure-function analysis of RAMP1 identified residues 91-103, which correlate to “helix 3” (Simms et al. Biophys. J. 91, 662-669 (2006)), as potentially significant in interaction with CRLR, and residues Trp74 and Phe92 as potentially interacting with the CGRP ligand in connection with its binding to the CGRP receptor complex. Ligand binding studies using a human/rat RAMP1 chimera suggest that the binding site for certain small molecule inhibitors of CGRP R (e.g., BIBN4096BS), is located within a region which includes amino acids 66-102 of RAMP1 (Mallee et al. JBC 277, 14294-14298 (2002)).
CRLR has 55% overall amino acid sequence identity with CTR, although the transmembrane domains are almost 80% identical. (McLatchie et al. (1998); Poyner et al., International union of pharmacology. XXXII. The mammalian calcitonin gene-related peptides, adrenomedullin, amylin and calcitonin receptors, Pharmacol. Rev., 54:233-246 (2002)).
CRLR has been shown to form a high affinity receptor for CGRP, when associated with RAMP1, or, to preferentially bind adrenomedullin when associated with RAMP2 or RAMP3. (McLatchie et al. (1998); Sexton et al., Receptor activity modifying proteins, Cellular Signaling, 13:73-83 (2001); Conner et al., Interaction of calcitonin-gene-related peptide with its receptors, Biochemical Society Transactions 30(Part 4): 451-454 (2002)). The glycosylation state of CRLR is associated with its pharmacology. RAMPs 1, 2, and 3 transport CRLR to the plasma membrane with similar efficiencies, however RAMP1 presents CRLR as a terminally glycosylated, mature glycoprotein and a CGRP receptor, whereas RAMPs 2 and 3 present CRLR as an immature, core glycosylated adrenomedullin receptor (“AM” or “AMR” or “AM receptor”. (Fraser et al. (1999)). Characterization of the CRLR/RAMP2 and CRLR/RAMP3 receptors in HEK293T cells by radioligand binding (125I-adrenomedullin as radioligand), functional assay (cAMP measurement), or biochemical analysis (SDS-polyacrylamide gel electrophoresis) revealed them to be indistinguishable, even though RAMPs 2 and 3 share only 30% amino acid sequence identity. (Fraser et al. 1999)). Differences have been observed, however, in the pharmacology for CRLR expressed with RAMP 2 versus RAMP 3. Both CGRP and CGRP8-37, as well as adrenomedullin and the adrenomedullin-derived peptide AM 22-52, are active at the RAMP 3 heterodimer, indicating that this complex may act as both a CGRP and an AM receptor. (Howitt et al., British Journal of Pharmacology, 140:477-486 (2003); Muff et al., Hypertens. Res., 26:S3-S8 (2003)). Co-expression of human CRLR with rat RAMP1, and vice versa, suggested that the RAMP1 species determined the pharmacological characteristics of the CRLR/RAMP1 complex with respect to several small molecule CGRP receptor antagonists tested. (Mallee et al., Receptor Activity-Modifying Protein 1 determines the species selectivity of non-peptide CGRP receptor antagonists, J. Biol. Chem., 277(16):14294-14298 (2002)). Unless associated with a RAMP, CRLR is not known to bind any endogenous ligand; it is currently the only GPCR thought to behave this way. (Conner et al., A key role for transmembrane prolines in calcitonin receptor-like agonist binding and signaling: implications for family B G-protein-coupled receptors, Molec. Pharmacol., 67(1):20-31 (2005)).
Calcitonin receptor (CT) has also been demonstrated to form heterodimeric complexes with RAMPs, which are known as amylin receptors (“AMY”, “AMY R” or “AMY receptor”). Generally, CT/RAMP1 receptors (referred to as “AMY1” or “AMY1”) have high affinity for salmon calcitonin, amylin and CGRP and lower affinity for mammalian calcitonins. For CT/RAMP2 receptors (“AMY2” or “AMY2”) and CT/RAMP3 receptors (“AMY3” or “AMY3”), a similar pattern is principally observed, although the affinity for CGRP is lower and may not be significant at physiologically relevant ligand concentrations. The precise receptor phenotype is dependent on cell type and CTR splice variant (CT(a) or CT(b)), particularly for RAMP2-generated amylin receptors. For example, a pure population of osteoclast-like cells reportedly expressed RAMP2, CTR, and CRLR, but not RAMP1 or RAMP3. (Hay et al. (2004); Christopoulos et al., Multiple amylin receptors arise from receptor activity-modifying protein interaction with the calcitonin receptor gene product, Molecular Pharmacology, 56:235-242 (1999); Muff et al., An amylin receptor is revealed following co-transfection of a calcitonin receptor with receptor activity modifying proteins-1 or -3, Endocrinology, 140:2924-2927 (1999); Sexton et al. (2001); Leuthauser et al., Receptor-activity-modifying protein 1 forms heterodimers with two G-protein-coupled receptors to define ligand recognition, Biochem. J., 351:347-351 (2000); Tilakaratne et al., Amylin receptor phenotypes derived from human calcitonin receptor/RAMP co-expression exhibit pharmacological differences dependent on receptor isoform and host cell environment, J. Pharmacol. Exp. Ther., 294:61-72 (2000); Nakamura et al., Osteoclast-like cells express receptor activity modifying protein 2: application of laser capture microdissection, J. Molec. Endocrinol., 34:257-261 (2005)).
Table 1, below, summarizes the relationship of the receptor components discussed above.











TABLE 1







Receptor

CT (calcitonin



Component
CRLR (CL)
receptor)









RAMP1
CGRP receptor
AMY1 receptor



RAMP2
AM1 receptor
AMY2 receptor



RAMP3
AM2 receptor
AMY3 receptor










Therapeutic uses of CGRP antagonists have been proposed. Noda et al. described the use of CGRP or CGRP derivatives for inhibiting platelet aggregation and for the treatment or prevention of arteriosclerosis or thrombosis. (EP 0385712 B1). Liu et al. disclosed therapeutic agents that modulate the activity of CTR, including vehicle-conjugated peptides such as calcitonin and human αCGRP. (WO 01/83526 A2; US 2002/0090646 A1). Vasoactive CGRP peptide antagonists and their use in a method for inhibiting CGRP binding to CGRP receptors were disclosed by Smith et al.; such CGRP peptide antagonists were shown to inhibit CGRP binding to coronary artery membranes and to relax capsaicin-treated pig coronary arteries. (U.S. Pat. No. 6,268,474 B1; and U.S. Pat. No. 6,756,205 B2). Rist et al. disclosed peptide analogs with CGRP receptor antagonist activity and their use in a drug for treatment and prophylaxis of a variety of disorders. (DE 19732944 A1).
CGRP is a potent vasodilator that has been implicated in the pathology of a number of vasomotor symptoms, such as all forms of vascular headache, including migraines (with or without aura) and cluster headache. Durham, N. Engl. J. Med. 350:1073-1 075, 2004. Migraine pathophysiology involves the activation of the trigeminal ganglia, where CGRP is localized, and CGRP levels significantly increase during a migraine attack. This in turn, promotes cranial blood vessel dilation and neurogenic inflammation and sensitization. (Doods, H., Curr. Opin. Investig. Drugs, 2:1261-1268 (2001)). Further, the serum levels of CGRP in the external jugular vein are elevated in patients during migraine headache. Goadsby et al., Ann. Neurol. 28:183-7, 1990. Intravenous administration of human ci-CGRP induced headache and migraine in patients suffering from migraine without aura, supporting the view that CGRP has a causative role in migraine (Lassen et al, Cephalalgia 22:54-61, 2002).
Migraine is a complex, common neurological condition that is characterized by severe, episodic attacks of headache and associated features, which may include nausea, vomiting, sensitivity to light, sound or movement. In some patients, the headache is preceded or accompanied by an aura. The headache pain may be severe and may also be unilateral in certain patients. Migraine attacks are disruptive to daily life. In US and Western Europe, the overall prevalence of migraine sufferers is 11% of the general population (6% males; 15-18% females). Furthermore, the median frequency of attacks in an individual is 1.5/month. While there are a number of treatments available to alleviate or reduce symptoms, preventive therapy is recommended for those patients having more than 3-4 attacks of migraine per month. Goadsby, et al. New Engl. J. Med. 346(4): 257-275, 2002. Some migraine patients have been treated with topiramate, an anticonvulsant that blocks voltage-dependent sodium channels and certain glutamate receptors (AMPA-kainate), potentiates GABA-A receptor activity, and blocks carbonic anhydrase. The relatively recent success of serotonin 5HT-I B/ID and/or 5HT-1 a receptor agonists, such as sumatriptan, in some patients has led researchers to propose a serotonergic etiology of the disorder. Unfortunately, while some patients respond well to this treatment, others are relatively resistant to its effects.
Possible CGRP involvement in migraine has been the basis for the development and testing of a number of compounds that inhibit release of CGRP (e.g., sumatriptan), antagonize at the CGRP receptor (e.g., dipeptide derivative BIBN4096BS (Boehringer Ingelheim); CGRP(8-37)), or interact with one or more of receptor-associated proteins, such as, RAMP1. Brain, S. et al., Trends in Pharmacological Sciences 23:51-53, 2002. Alpha-2 adrenoceptor subtypes and adenosine Al receptors also control (inhibit) CGRP release and trigeminal activation (Goadsby et al., Brain 125:1392-401, 2002). On the other hand, treatment with compounds that exclusively inhibit neurogenic inflammation (e.g., tachykinin NKI receptor antagonists) or trigeminal activation (e.g., 5HT10 receptor agonists) appears to be relatively ineffective as acute treatments for migraine, leading some to question whether inhibiting release of CGRP is the basis of effective anti-migraine treatments. Arulmani et al., Eur. J. Pharmacol. 500:315-330, 2004.
Although the precise pathophysiology of migraine is not yet well understood, the therapeutic use of CGRP antagonists and CGRP-targeting aptamers has been proposed for the treatment of migraine and other disorders. (E.g., Olesen et al., Calcitonin gene-related peptide receptor antagonist BIBN 4096 BS for the acute treatment of migraine, New Engl. J. Med., 350:1104-1110 (2004); Perspective: CGRP-receptor antagonists—a fresh approach to migraine, New Engl. J. Med., 350:1075 (2004); Vater et al., Short bioactive Spiegelmers to migraine-associated calcitonin gene-related peptide rapidly identified by a novel approach: tailored-SELEX, Nuc. Acids Res., 31(21 e130):1-7 (2003); WO 96/03993). Further, a potent small-molecule CGRP antagonist has been shown to relieve moderate-to-severe migraine attacks, including migraine pain and migraine-associated symptoms, in a recent Phase III clinical trial (Connor, et al. Efficacy and Safety of telcagepant (MK-0974), a Novel Oral CGRP Receptor Antagonist, for Acute Migraine Attacks. Poster, European Headache and Migraine Trust International Congress, London, England, September 2008).
CGRP may also be involved in chronic pain syndromes other than migraine. In rodents, intrathecally delivered CGRP induces severe pain, and CGRP levels are enhanced in a number of pain models. In addition, CGRP antagonists partially block nociception in acute pancreatitis in rodents (Wick, et al., (2006) Surgery, Volume 139, Issue 2, Pages 197-201). Together, these observations imply that a potent and selective CGRP receptor antagonist can be an effective therapeutic for treatment of chronic pain, including migraine.
SUMMARY
Isolated antibodies, antigen-binding fragments thereof and other isolated antigen-binding proteins that bind CGRP R, particularly primate CGRP R, e.g., human CGRP R, are described herein. Such isolated antigen-binding proteins may selectively inhibit primate CGRP R (as compared with primate AM1, AM2, CT or amylin receptors) and may bind both the CRLR and RAMP1 components of CGRP R. The CGRP R binding proteins were found to inhibit, interfere with, or modulate at least one of the biological responses related to CGRP R, and as such, are useful for ameliorating the effects of CGRP R-related diseases or disorders. Binding of certain antigen-binding proteins to CGRP R can, therefore, have one or more of the following activities: inhibiting, interfering with, or modulating CGRP R, inhibiting vasodialation, decreasing neurogenic inflammation, and alleviating, ameliorating, treating, preventing, or reducing symptoms of chronic pain or migraine.
In one exemplary aspect, the isolated antigen-binding proteins selectively inhibit human CGRP receptor (as compared with the human AM1, AM2 or amylin receptors). In some embodiments, the isolated antigen binding protein selectively inhibits the human CGRP receptor with a selectivity ratio of 50 or more, 75 or more, 100 or more, 150 or more, 200 or more, 250 or more, 300 or more, 400 or more, 500 or more, 750 or more or 1,000 or more. The degree of selective inhibition may be determined using any suitable method, e.g., using a cAMP assay as described in the Examples herein. In some embodiments, the isolated antigen binding protein specifically binds to both human CRLR and human RAMP1, and does not specifically bind to human AM1, human AM2 or a human amylin receptor (e.g., AMY1 or AMY2). For example, the isolated antigen binding protein may specifically bind human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM. In some embodiments, the isolated antigen binding protein specifically binds to human CGRP R with a KD≦100 nM, ≦10 nM, or ≦5 nM as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In some embodiments, the isolated antigen binding protein has a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay. In some embodiments, the isolated antigen binding protein has a Ki of ≦100 nM, ≦50 nM, ≦20 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, for example, the assay described in Example 5 herein.
In another exemplary aspect, the isolated antigen-binding proteins compete for binding to human CGRP R, e.g., the extracellular portion of CGRP R, with a reference antibody comprising a heavy chain variable region comprising a sequence selected from the group consisting of SEQ ID NO:158-170 and a light chain variable region comprising a sequence selected from the group consisting of SEQ ID NO:137-153. In some embodiments, binding competition is assessed using a binning assays, e.g., using a Biacore analysis, for example, as described in Example 7 herein. In some embodiments, the isolated antigen binding protein competes for binding to human CGRP R with a reference antibody, the reference antibody comprising (i) a heavy chain variable region comprising a sequence selected from the group consisting of SEQ ID NOs:161, 163, 164, 166 and 168; and (ii) a light chain variable region comprising a sequence selected from the group consisting of SEQ ID NOs: 140, 143, 146, 148 and 150. In certain embodiments, the reference antibody comprises (i) a heavy chain defined by a sequence selected from the group consisting of SEQ ID NOs:32, 34, 35, 37 and 39; and (ii) a light chain defined by a sequence selected from the group consisting of SEQ ID NOs: 15, 18, 21, 23 and 25. In more specific embodiments, the reference antibody comprises a heavy chain and a light chain defined by one of the following pairs of sequences: (i) SEQ ID NO: 32 and SEQ ID NO: 15; (ii) SEQ ID NO: 34 and SEQ ID NO: 18; (iii) SEQ ID NO: 35 and SEQ ID NO: 21; (iv) SEQ ID NO: 37 and SEQ ID NO: 23; and (v) SEQ ID NO: 39 and SEQ ID NO: 25. In one such embodiment, the reference antibody comprises a heavy chain comprising SEQ ID NO: 32 and a light chain comprising SEQ ID NO: 15. In another such embodiment, the reference antibody comprises a heavy chain comprising SEQ ID NO: 34 and a light chain comprising SEQ ID NO: 18. In another such embodiment, the reference antibody comprises a heavy chain comprising SEQ ID NO: 35 and a light chain comprising SEQ ID NO: 21. In another such embodiment, the reference antibody comprises a heavy chain comprising SEQ ID NO: 37 and a light chain comprising SEQ ID NO: 23. In another such embodiment, the reference antibody comprises a heavy chain comprising SEQ ID NO: 39 and a light chain comprising SEQ ID NO: 25.
In certain embodiments, the isolated antigen-binding proteins that compete for binding to human CGRP R also selectively inhibit the human CGRP receptor, e.g., with a selectivity ratio of 100 or more, 250 or more, 500 or more, 750 or more, 1,000 or more, 2,500 or more, 5,000 or more or 10,000 or more, and such selectivity may be determined, e.g., using a cAMP assay as described in the Examples herein. In related embodiments, the isolated antigen-binding proteins that compete for binding to human CGRP R specifically binds to human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM, e.g., as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In related embodiments, the isolated antigen-binding proteins that compete for binding to human CGRP R have a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay, e.g., in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, for example, the assay described in Example 5 herein.
In any of the above-mentioned embodiments, the isolated antigen-binding protein that competes for binding to human CGRP R may be, for example, a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human (e.g., fully human) antibody, a humanized antibody, a chimeric antibody, a multi-specific antibody, or an antigen binding fragment thereof. Further, the antibody fragment of the isolated antigen-binding protein that competes for binding to human CGRP R can be a Fab fragment, and Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody or a single chain antibody molecule; and may be, for example, a human monoclonal antibody, e.g., an IgG1-, IgG2-, IgG3-, or IgG4-type antibody. In certain embodiments, the isolated antigen binding proteins that compete for binding to human CGRP R may be neutralizing antigen binding proteins.
In certain exemplary aspects, the isolated antigen-binding proteins described, e.g., isolated antibodies or fragments thereof, comprise (A) one or more heavy chain complementary determining regions (CDRHs) selected from the group consisting of: (i) a CDRH1 having SEQ ID NO:134; (ii) a CDRH2 having SEQ ID NO:135; (iii) a CDRH3 having SEQ ID NO:136; and optionally (iv) a CDRH of (i), (ii) and (iii) that contains one or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than four amino acids; (B) one or more light chain complementary determining regions (CDRLs) selected from the group consisting of: (i) a CDRL1 selected from the group consisting of SEQ ID NOs:107, 111 and 118; (ii) a CDRL2 selected from the group consisting of SEQ ID NOs: 108, 112 and 119; (iii) a CDRL3 selected from the group consisting of SEQ ID NOs: 109, 113 and 120; and optionally (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more, amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than four amino acids; or (C) one or more heavy chain CDRHs of (A) and one or more light chain CDRLs of (B).
In some embodiments, the CDRHs are further selected from the group consisting of: (i) a CDRH1 having SEQ ID NO:131; (ii) a CDRH2 having SEQ ID NO:132; (iii) a CDRH3 having SEQ ID NO:133; and optionally (iv) a CDRH of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than three amino acids. In related embodiments, the CDRHs are further selected from the group consisting of: (i) a CDRH1 selected from the group consisting of SEQ ID NO:76, 88, 100, 121, 125 and 128; (ii) a CDRH2 selected from the group consisting of SEQ ID NO: 89, 101, 122, 124, 126, and 129; (iii) a CDRH3 selected from the group consisting of SEQ ID NO: 78, 90, 102, 123, 127, and 130; and optionally (iv) a CDRH of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than two amino acids. In other related embodiments, the CDRHs are further selected from the group consisting of: (i) a CDRH1 selected from the group consisting of SEQ ID NO: 73, 76, 79, 82, 85, 88, 92, 97, and 100; (ii) a CDRH2 selected from the group consisting of SEQ ID NO: 74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129; (iii) a CDRH3 selected from the group consisting of SEQ ID NO: 75, 78, 81, 84, 87, 90, 96, 99, 102, and 123; and optionally (iv) a CDRH of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than two amino acids.
In some embodiments, the CDRLs are further selected from the group consisting of: (i) a CDRL1 selected from the group consisting of SEQ ID NOs:107, 111 and 115; (ii) a CDRL2 selected from the group consisting of SEQ ID NOs: 108, 112 and 116; (iii) a CDRL3 selected from the group consisting of SEQ ID NOs: 109, 113 and 117; and optionally (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In some embodiments, the amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions collectively total no more than three amino acids per CDRL. In some embodiments, the amino acid substitutions, deletions or insertions collectively total no more than two amino acids per CDRL. In related embodiments, the CDRLs are further selected from the group consisting of: (i) a CDRL1 selected from the group consisting of SEQ ID NOs: 42, 45, 51, 57, 62, 69, 103, and 110; (ii) a CDRL2 selected from the group consisting of SEQ ID NOs: 43, 52, 55, 58, 63, 70, 104, 108, and 114; (iii) a CDRL3 selected from the group consisting of SEQ ID NOs: 44, 47, 53, 56, 59, 64, 105, and 106; and optionally (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions that collectively total no more than two amino acids. In additional related embodiments, the CDRLs are further selected from the group consisting of: (i) a CDRL1 selected from the group consisting of SEQ ID NOs: 42, 45, 48, 51, 54, 57, 62, 65, 66, and 69; (ii) a CDRL2 selected from the group consisting of SEQ ID NOs: 43, 46, 49, 52, 55, 58, 61, 63, 67, and 70; (iii) a CDRL3 selected from the group consisting of SEQ ID NOs: 44, 47, 50, 53, 56, 59, 64, 68, 71, and 72; and optionally (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In one embodiment, the total number of amino acid substitutions, deletions or insertions is no more than two amino acids per CDR. In another embodiment, the amino acid substitutions are conservative substitutions.
In another embodiment, the isolated antigen-binding protein comprises at least one or two CDRH of any of the above-mentioned (A) and at least one or two CDRL of any of the above-mentioned (B). In yet another embodiment, the isolated antigen-binding protein comprises (i) at least three CDRH of any of the above-mentioned (A), where the three CDRHs include CDRH1, a CDRH2 and a CDRH3, and (ii) at least three CDRL of any of the above-mentioned (B), where the three CDRLs include CDRL1, a CDRL2 and a CDRL3. In additional embodiments, the isolated antigen binding proteins described above comprise a first amino acid sequence comprising at least one CDRH and a second amino acid sequence comprising at least one CDRL. In one embodiment, the first and the second amino acid sequences are covalently bonded to each other.
In another aspect, the isolated antigen-binding protein includes a CDRH1, a CDRH2 and a CDRH3. In one embodiment, CDRH1 comprises SEQ ID NO:73, CDRH2 comprises SEQ ID NO:74 and CDRH3 comprises SEQ ID NO:75. In another embodiment, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:77 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRH1 comprises SEQ ID NO:79, CDRH2 comprises SEQ ID NO:80 and CDRH3 comprises SEQ ID NO:81. In another embodiment, CDRH1 comprises SEQ ID NO:82, CDRH2 comprises SEQ ID NO:83 and CDRH3 comprises SEQ ID NO:84. In another embodiment, CDRH1 comprises SEQ ID NO:85, CDRH2 comprises SEQ ID NO:86 and CDRH3 comprises SEQ ID NO:87. In another embodiment, CDRH1 comprises SEQ ID NO:88, CDRH2 comprises SEQ ID NO:89 and CDRH3 comprises SEQ ID NO:90. In another embodiment, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:91 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRH1 comprises SEQ ID NO:92, CDRH2 comprises SEQ ID NO:93 and CDRH3 comprises SEQ ID NO:94. In another embodiment, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:95 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRH1 comprises SEQ ID NO:73, CDRH2 comprises SEQ ID NO:74 and CDRH3 comprises SEQ ID NO:96. In another embodiment, CDRH1 comprises SEQ ID NO:97, CDRH2 comprises SEQ ID NO:98 and CDRH3 comprises SEQ ID NO:99. In another embodiment, CDRH1 comprises SEQ ID NO:100, CDRH2 comprises SEQ ID NO:101 and CDRH3 comprises SEQ ID NO:102.
In another aspect, the isolated antigen-binding protein includes a CDRL1 sequence, a CDRL2 sequence and a CDRL3 sequence. In one embodiment, CDRL1 comprises SEQ ID NO:42, CDRL2 comprises SEQ ID NO:43 and CDRL3 comprises SEQ ID NO:44. In another embodiment, CDRL1 comprises SEQ ID NO:45, CDRL2 comprises SEQ ID NO:46 and CDRL3 comprises SEQ ID NO:47. In another embodiment, CDRL1 comprises SEQ ID NO:48, CDRL2 comprises SEQ ID NO:49 and CDRL3 comprises SEQ ID NO:50. In another embodiment, CDRL1 comprises SEQ ID NO:51, CDRL2 comprises SEQ ID NO:52 and CDRL3 comprises SEQ ID NO:53. In another embodiment, CDRL1 comprises SEQ ID NO:54, CDRL2 comprises SEQ ID NO:55 and CDRL3 comprises SEQ ID NO:56. In another embodiment, CDRL1 comprises SEQ ID NO:57, CDRL2 comprises SEQ ID NO:58 and CDRL3 comprises SEQ ID NO:59. In another embodiment, CDRL1 comprises SEQ ID NO:60, CDRL2 comprises SEQ ID NO:55 and CDRL3 comprises SEQ ID NO:56. In another embodiment, CDRL1 comprises SEQ ID NO:45, CDRL2 comprises SEQ ID NO:61 and CDRL3 comprises SEQ ID NO:47. In another embodiment, CDRL1 comprises SEQ ID NO:62, CDRL2 comprises SEQ ID NO:63 and CDRL3 comprises SEQ ID NO:64. In another embodiment, CDRL1 comprises SEQ ID NO:65, CDRL2 comprises SEQ ID NO:55 and CDRL3 comprises SEQ ID NO:56. In another embodiment, CDRL1 comprises SEQ ID NO:66, CDRL2 comprises SEQ ID NO:67 and CDRL3 comprises SEQ ID NO:68. In another embodiment, CDRL1 comprises SEQ ID NO:69, CDRL2 comprises SEQ ID NO:70 and CDRL3 comprises SEQ ID NO:71. In another embodiment, CDRL1 comprises SEQ ID NO:69, CDRL2 comprises SEQ ID NO:70 and CDRL3 comprises SEQ ID NO:72.
In another aspect, the isolated antigen-binding protein includes a CDRL1 sequence, a CDRL2 sequence, a CDRL3 sequence, a CDRH1 sequence, a CDRH2 sequence and a CDRH3 sequence. In one embodiment, CDRL1 comprises SEQ ID NO:42, CDRL2 comprises SEQ ID NO:43, CDRL3 comprises SEQ ID NO:44, CDRH1 comprises SEQ ID NO:73, CDRH2 comprises SEQ ID NO:74 and CDRH3 comprises SEQ ID NO:75. In another embodiment, CDRL1 comprises SEQ ID NO:45, CDRL2 comprises SEQ ID NO:46, CDRL3 comprises SEQ ID NO:47, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:77 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRL1 comprises SEQ ID NO:48, CDRL2 comprises SEQ ID NO:49, CDRL3 comprises SEQ ID NO:50, CDRH1 comprises SEQ ID NO:79, CDRH2 comprises SEQ ID NO:80 and CDRH3 comprises SEQ ID NO:81. In another embodiment, CDRL1 comprises SEQ ID NO:51, CDRL2 comprises SEQ ID NO:52, CDRL3 comprises SEQ ID NO:53, CDRH1 comprises SEQ ID NO:82, CDRH2 comprises SEQ ID NO:83 and CDRH3 comprises SEQ ID NO:84. In another embodiment, CDRL1 comprises SEQ ID NO:54, CDRL2 comprises SEQ ID NO:55, CDRL3 comprises SEQ ID NO:56, CDRH1 comprises SEQ ID NO:85, CDRH2 comprises SEQ ID NO:86 and CDRH3 comprises SEQ ID NO:87. In another embodiment, CDRL1 comprises SEQ ID NO:57, CDRL2 comprises SEQ ID NO:58, CDRL3 comprises SEQ ID NO:59, CDRH1 comprises SEQ ID NO:88, CDRH2 comprises SEQ ID NO:89 and CDRH3 comprises SEQ ID NO:90. In another embodiment, CDRL1 comprises SEQ ID NO:60, CDRL2 comprises SEQ ID NO:55, CDRL3 comprises SEQ ID NO:56, CDRH1 comprises SEQ ID NO:85, CDRH2 comprises SEQ ID NO:86 and CDRH3 comprises SEQ ID NO:87. In another embodiment, CDRL1 comprises SEQ ID NO:45, CDRL2 comprises SEQ ID NO:61, CDRL3 comprises SEQ ID NO:47, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:91 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRL1 comprises SEQ ID NO:62, CDRL2 comprises SEQ ID NO:63, CDRL3 comprises SEQ ID NO:64, CDRH1 comprises SEQ ID NO:92, CDRH2 comprises SEQ ID NO:93 and CDRH3 comprises SEQ ID NO:94. In another embodiment, CDRL1 comprises SEQ ID NO:45, CDRL2 comprises SEQ ID NO:61, CDRL3 comprises SEQ ID NO:47, CDRH1 comprises SEQ ID NO:76, CDRH2 comprises SEQ ID NO:95 and CDRH3 comprises SEQ ID NO:78. In another embodiment, CDRL1 comprises SEQ ID NO:65, CDRL2 comprises SEQ ID NO:55, CDRL3 comprises SEQ ID NO:56, CDRH1 comprises SEQ ID NO:85, CDRH2 comprises SEQ ID NO:86 and CDRH3 comprises SEQ ID NO:87. In another embodiment, CDRL1 comprises SEQ ID NO:42, CDRL2 comprises SEQ ID NO:43, CDRL3 comprises SEQ ID NO:44, CDRH1 comprises SEQ ID NO:73, CDRH2 comprises SEQ ID NO:74 and CDRH3 comprises SEQ ID NO:96. In another embodiment, CDRL1 comprises SEQ ID NO:66, CDRL2 comprises SEQ ID NO:67, CDRL3 comprises SEQ ID NO:68, CDRH1 comprises SEQ ID NO:97, CDRH2 comprises SEQ ID NO:98 and CDRH3 comprises SEQ ID NO:99. In another embodiment, CDRL1 comprises SEQ ID NO:69, CDRL2 comprises SEQ ID NO:70, CDRL3 comprises SEQ ID NO:71, CDRH1 comprises SEQ ID NO:100, CDRH2 comprises SEQ ID NO:101 and CDRH3 comprises SEQ ID NO:102. In another embodiment, CDRL1 comprises SEQ ID NO:69, CDRL2 comprises SEQ ID NO:70, CDRL3 comprises SEQ ID NO:72, CDRH1 comprises SEQ ID NO:100, CDRH2 comprises SEQ ID NO:101 and CDRH3 comprises SEQ ID NO:102.
In any of the above-mentioned sequence-defined embodiments, the isolated antigen-binding protein may be, for example, a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human (e.g., fully human) antibody, a humanized antibody, a chimeric antibody, a multi-specific antibody, or an antigen binding fragment thereof. Further, the antibody fragment of the isolated antigen-binding proteins may be a Fab fragment, and Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, or a single chain antibody molecule. For example, the isolated antigen binding protein may be a human monoclonal antibody, and may be, e.g., an IgG1-, IgG2-, IgG3-, or IgG4-type antibody. Further, the isolated antigen binding proteins may be neutralizing antigen binding proteins.
In any of the above-mentioned sequence-defined embodiments, the isolated antigen-binding protein may specifically bind to both human CRLR and human RAMP1 and not specifically bind to AM1, AM2 or a human amylin receptor (e.g., AMY1), for example, the isolated antigen binding protein may specifically bind to human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM, e.g., as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In any of the above-mentioned sequence-defined embodiments, the isolated antigen-binding protein may selectively inhibit human CGRP R, relative to the human the AM1, AM2 or AMY1 receptors, e.g., with a selectivity ratio of 100 or more, 250 or more, 500 or more, 750 or more, 1,000 or more, 2,500 or more, 5,000 or more or 10,000 or more, where the degree of selective inhibition may be determined using any suitable method, e.g., using a cAMP assay as described in the Examples herein. In any of the above-mentioned sequence-defined embodiments, the isolated antigen-binding protein may have a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay, e.g., in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, e.g., the assay described in Example 5 herein.
Another set of embodiment includes isolated antigen-binding proteins that include one or a combination of CDRs having the consensus sequences described below, and optionally, bind human CGRP R. The consensus sequences are derived from phylogenetically related CDR sequences. In one aspect, the CDRs from the various groups may be mixed and matched in any particular isolated antigen-binding protein that binds human CGRP R. In another aspect, the antigen binding protein comprises heavy and light chain CDRs that are derived from the same phylogenetically-related group of antibody clones. Exemplary CDR consensus sequences are as follows:
K1 Consensus
CDR1 RASQGIRX1DLG (SEQ ID NO:103), wherein X1 is selected from the group consisting of N and K.
CDR2 X1ASSLQS (SEQ ID NO:104), wherein X1 is selected from the group consisting of A and G.
CDR3 LQYNX1X2PWT (SEQ ID NO:105), wherein X1 is selected from the group consisting of I and S, and X2 is selected from the group consisting of Y and F.
K4 Consensus
CDR3 QQYGNSLX1R (SEQ ID NO:106), wherein X1 is selected from the group consisting of S and C.
K1,4 Consensus
CDR1 RASQX1X2X3X4GX5LX6 (SEQ ID NO:107), wherein X1 is selected from the group consisting of S and G, X2 is selected from the group consisting of V and I, X3 is selected from the group consisting of S and R, X4 is selected from the group consisting of S, N and K, X5 is selected from the group consisting of Y and D, and X6 is selected from the group consisting of T and G.
CDR2 X1ASSX2X3X4 (SEQ ID NO:108), wherein X1 is selected from the group consisting of G and A, X2 is selected from the group consisting of R and L, X3 is selected from the group consisting of A and Q, and X4 is selected from the group consisting of T and S.
CDR3 X1QYX2X3X4X5X6X7 (SEQ ID NO:109), wherein X1 is selected from the group consisting of Q and L, X2 is selected from the group consisting of G and N, X3 is selected from the group consisting of N and T, X4 is selected from the group consisting of S, Y and F, X5 is selected from the group consisting of L and P, X6 is selected from the group consisting of C, W and S, and X7 is selected from the group consisting of R and T.
K3 Consensus
CDR1 KSSQSLLHSX1GX2X3YLY (SEQ ID NO:110), wherein X1 is selected from the group consisting of D and A, X2 is selected from the group consisting of R and K, and X3 is selected from the group consisting of N and T.
K2,3 Consensus
CDR1 X1SSQSLLHSX2GX3X4YLX5 (SEQ ID NO:111), wherein X1 is selected from the group consisting of R and K, X2 is selected from the group consisting of F, D and A, X3 is selected from the group consisting of Y, R and K, X4 is selected from the group consisting of N and T, and X5 is selected from the group consisting of D and Y.
CDR2 X1X2SNRX3S (SEQ ID NO:112), wherein X1 is selected from the group consisting of L and E, X2 is selected from the group consisting of G and V, and X3 is selected from the group consisting of A and F.
CDR3 MQX1X2X3X4PX5T (SEQ ID NO:113), wherein X1 is selected from the group consisting of A and S, X2 is selected from the group consisting of L and F, X3 is selected from the group consisting of Q and P, X4 is selected from the group consisting of T and L, and X5 is selected from the group consisting of F and L.
Lm3 Consensus
CDR2 RX1NQRPS (SEQ ID NO:114), wherein X1 is selected from the group consisting of N and S.
Lm1,2,3 Consensus
CDR1 SGSSSNIGX1NX2VX3 (SEQ ID NO:115), wherein X1 is selected from the group consisting of N and S, X2 is selected from the group consisting of Y and T, and X3 is selected from the group consisting of S, N and Y.
CDR2 X1X2NX3RPS (SEQ ID NO:116), wherein X1 is selected from the group consisting of D, T and R, X2 is selected from the group consisting of N and S, and X3 is selected from the group consisting of K and Q.
CDR3 X1X2X3DX4X5LX6X7VV (SEQ ID NO:117), wherein X1 is selected from the group consisting of G and A, X2 is selected from the group consisting of T and A, X3 is selected from the group consisting of W and R, X4 is selected from the group consisting of S and D, X5 is selected from the group consisting of R and S, X6 is selected from the group consisting of S and N, and X7 is selected from the group consisting of A and G.
LmAll Consensus
CDR1 X1GX2X3SX4X5X6X7X8X9X10X11 (SEQ ID NO:118), wherein X1 is selected from the group consisting of S and Q, X2 is present or absent, and if present, is S, X3 is selected from the group consisting of S and D, X4 is present or absent, and if present, is N, X5 is selected from the group consisting of I and L, X6 is selected from the group consisting of G and R, X7 is selected from the group consisting of N and S, X8 is selected from the group consisting of N and F, X9 is selected from the group consisting of Y and T, X10 is selected from the group consisting of V and A, and X11 is selected from the group consisting of S, N and Y.
CDR2 X1X2NX3RPS (SEQ ID NO:119), wherein X1 is selected from the group consisting of D, G, T, and R, X2 is selected from the group consisting of N, K and S, and X3 is selected from the group consisting of K, N and Q.
CDR3 X1X2X3DX4X5X6X7X8X9V (SEQ ID NO:120), wherein X1 is selected from the group consisting of G, N and A, X2 is selected from the group consisting of T, S and A, X3 is selected from the group consisting of W and R, X4 is selected from the group consisting of S and D, X5 is selected from the group consisting of R and S, X6 is selected from the group consisting of L and V, X7 is selected from the group consisting of S, Y and N, X8 is selected from the group consisting of A, H and G, and X9 is selected from the group consisting of V and L.
HC1 Consensus
CDR1 X1YYMX2 (SEQ ID NO:121), wherein X1 is selected from the group consisting of G and D, X2 is selected from the group consisting of H and Y.
CDR2 WIX1PNSGGTNYAQKFQG (SEQ ID NO:122), wherein X1 is selected from the group consisting of N and S.
CDR3 X1X2X3SX4X5X6X7X8GX9X10X11X12YYX13GMDV (SEQ ID NO:123), wherein X1 is selected from the group consisting of D and G, X2 is selected from the group consisting of Q and G, X3 is selected from the group consisting of M and Y, X4 is selected from the group consisting of I and G, X5 is selected from the group consisting of I and Y, X6 is selected from the group consisting of M and A, X7 is present or absent, and if present, is L, X8 is present or absent, and if present, is R, X9 is selected from the group consisting of V and L, X10 is selected from the group consisting of F and Y, X11 is selected from the group consisting of P and S, X12 is selected from the group consisting of P and H, and X13 is present or absent, and if present, is Y.
HC2 Consensus
CDR2 RIKSX1TDGGTTDYX2APVKG (SEQ ID NO:124), wherein X1 is selected from the group consisting of K and T, and X2 is selected from the group consisting of T and A.
HC3 Consensus
CDR1 X1YX2MX3 (SEQ ID NO:125), wherein X1 is selected from the group consisting of T and S, X2 is selected from the group consisting of S and A, and X3 is selected from the group consisting of N and S.
CDR2 X1ISX2SX3X4X5X6YYADSVKG (SEQ ID NO:126), wherein X1 is selected from the group consisting of S and A, X2 is selected from the group consisting of S and G, X3 is selected from the group consisting of S and G, X4 is selected from the group consisting of S and G, X5 is selected from the group consisting of Y and R, and X6 is selected from the group consisting of R and T.
CDR3 X1X2X3X4X5X6X7PYSX8X9WYDYYYGMDV (SEQ ID NO:127), wherein X1 is selected from the group consisting of E and D, X2 is selected from the group consisting of G and Q, X3 is selected from the group consisting of V and R, X4 is selected from the group consisting of S and E, X5 is selected from the group consisting of G and V, X6 is selected from the group consisting of S and G, X7 is present or absent, and if present, is S, X8 is selected from the group consisting of I and S, and X9 is selected from the group consisting of S and G.
HC4 Consensus
CDR1 SX1GMH (SEQ ID NO:128), wherein X1 is selected from the group consisting of F and Y.
CDR2 VISX1DGSX2KYX3X4DSVKG (SEQ ID NO:129), wherein X1 is selected from the group consisting of F and Y, X2 is selected from the group consisting of I and H, X3 is selected from the group consisting of S and Y, and X4 is selected from the group consisting of V and A.
CDR3 X1RX2X3X4X5X6SX7X8YYX9X10X11YYGX12X13V (SEQ ID NO:130), wherein X1 is selected from the group consisting of D and E, X2 is selected from the group consisting of L and K, X3 is selected from the group consisting of N and R, X4 is selected from the group consisting of Y and V, X5 is selected from the group consisting of Y and T, X6 is selected from the group consisting of D and M, X7 is selected from the group consisting of S and T, X8 is selected from the group consisting of G and L, X9 is selected from the group consisting of H and Y, X10 is present or absent, and if present, is Y, X11 is selected from the group consisting of K and F, X12 is selected from the group consisting of M and L, and X13 is selected from the group consisting of A and D.
HCA Consensus
CDR1 X1X2X3MX4 (SEQ ID NO:131), wherein X1 is selected from the group consisting of N and S, X2 is selected from the group consisting of A, Y and F, X3 is selected from the group consisting of W, A and G, and X4 is selected from the group consisting of S and H.
CDR2 X1IX2X3X4X5X6GX7X8X9X10X11X12X13X14VKG (SEQ ID NO:132), wherein X1 is selected from the group consisting of R, A and V, X2 is selected from the group consisting of K, S and W, X3 is selected from the group consisting of S, G, F and Y, X4 is present or absent, and if present, is selected from the group consisting of K and T, X5 is present or absent, and if present, is T, X6 is selected from the group consisting of D and S, X7 is selected from the group consisting of G and S, X8 is selected from the group consisting of T, R, I, N and H, X9 is selected from the group consisting of T and K, X10 is selected from the group consisting of D and Y, X11 is selected from the group consisting of Y and S, X12 is selected from the group consisting of T, A and V, X13 is selected from the group consisting of A and D, and X14 is selected from the group consisting of P and S.
CDR3 X1X2X3X4X5X6X7X8X9X10X11X12X13X14X15X16X17GX18X19V (SEQ ID NO:133), wherein X1 is selected from the group consisting of D, A and E, X2 is selected from the group consisting of R, Q and G, X3 is selected from the group consisting of T, R, L, G and K, X4 is selected from the group consisting of G, E, N, I and R, X5 is selected from the group consisting of Y, V and A, X6 is selected from the group consisting of S, G, Y, A and T, X7 is selected from the group consisting of I, P, D, A and M, X8 is present or absent, and if present, is selected from the group consisting of S and Y, X9 is present or absent, and if present, is selected from the group consisting of W, S and T, X10 is selected from the group consisting of S, G and L, X11 is selected from the group consisting of S, G, L and Y, X12 is present or absent, and if present, is selected from the group consisting of W and Y, X13 is selected from the group consisting of Y and H, X14 is present or absent, and if present, is selected from the group consisting of Y and D, X15 is selected from the group consisting of Y, K and F, X16 is present or absent, and if present, is Y, X17 is present or absent, and if present, is Y, X18 is selected from the group consisting of M and L, and X19 is selected from the group consisting of D and A.
HCB Consensus
CDR1 X1X2X3X4X5 (SEQ ID NO:134), wherein X1 is selected from the group consisting of N, G, D, S and A, X2 is selected from the group consisting of A, F and Y, X3 is selected from the group consisting of W, Y, A and G, X4 is selected from the group consisting of M and L, and X5 is selected from the group consisting of S and H.
CDR2 X1IX2X3X4X5X6X7X8X9X10X11X12X13X14X15X16X17G (SEQ ID NO:135), wherein X1 is selected from the group consisting of R, W, A, V, S and F, X2 is selected from the group consisting of K, N, S, W and R, X3 is selected from the group consisting of S, P, G, F and Y, X4 is present or absent, and if present, is selected from the group consisting of K, T and R, X5 is present or absent, and if present, is selected from the group consisting of T and A, X6 is selected from the group consisting of D, N, H, S and Y, X7 is selected from the group consisting of G and S, X8 is selected from the group consisting of G and S, X9 is selected from the group consisting of T, G, R, I, N, H and Y, X10 is selected from the group consisting of T, K, R and P, X11 is selected from the group consisting of D, N, Y and E, X12 is selected from the group consisting of Y and S, X13 is selected from the group consisting of T, A and V, X14 is selected from the group consisting of A, Q and D, X15 is selected from the group consisting of P, K and S, X16 is selected from the group consisting of V and F, and X17 is selected from the group consisting of K and Q.
CDR3 X1X2X3X4X5SX6X7X8X9X10X11X12X13X14X15X16GX17X18V (SEQ ID NO:136), wherein X1 is selected from the group consisting of D, G, A and E, X2 is selected from the group consisting of R, G and Q, X3 is selected from the group consisting of T, M, Y, R, L, G and K, X4 is selected from the group consisting of G, S, E, N, I and R, X5 is selected from the group consisting of Y, I, G, V and A, X6 is selected from the group consisting of S, I, Y, G, A and T, X7 is selected from the group consisting of I, M, A, P and D, X8 is present or absent, and if present, is selected from the group consisting of S, L and Y, X9 is present or absent, and if present, is selected from the group consisting of W, R, S and T, X10 is selected from the group consisting of S, G and L, X11 is selected from the group consisting of S, V, L, G and Y, X12 is present or absent, and if present, is selected from the group consisting of F, Y and W, X13 is selected from the group consisting of Y, P, S and H, X14 is present or absent, and if present, is selected from the group consisting of Y, P, D and H, X15 is selected from the group consisting of Y, K and F, X16 is present or absent, and if present, is Y, X17 is present or absent, and if present, is Y and X18 is selected from the group consisting of M and L.
In any of the above-mentioned consensus sequence defined embodiments, the isolated antigen-binding protein may be, for example, an AVIMER polypeptide, a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human (e.g., fully human) antibody, a humanized antibody, a chimeric antibody, a multi-specific antibody, or an antigen binding fragment thereof. Further, the antibody fragment of the isolated antigen-binding proteins may be a Fab fragment, and Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, or a single chain antibody molecule. For example, the isolated antigen binding protein may be a human monoclonal antibody, and may be, e.g., an IgG1-, IgG2-, IgG3-, or IgG4-type antibody. Further, the isolated antigen binding proteins may be neutralizing antigen binding proteins.
In any of the above-mentioned consensus sequence defined embodiments, the isolated antigen-binding protein may specifically bind to both human CRLR and human RAMP1 and not specifically bind to AM1, AM2 or a human amylin receptor (e.g., AMY1), for example, the isolated antigen binding protein may specifically bind to human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM, e.g., as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In any of the above-mentioned consensus sequence defined embodiments, the isolated antigen-binding protein may selectively inhibit human CGRP R, relative to the human the AM1, AM2 or AMY1 receptors, e.g., with a selectivity ratio of 100 or more, 250 or more, 500 or more, 750 or more, 1,000 or more, 2,500 or more, 5,000 or more or 10,000 or more, where the degree of selective inhibition may be determined using any suitable method, e.g., using a cAMP assay as described in the Examples herein. In any of the above-mentioned consensus sequence defined embodiments, the isolated antigen-binding protein may have a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay, e.g., in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, e.g., the assay described in Example 5 herein.
Some of the isolated antigen-binding proteins described comprise a heavy chain variable region (VH) sequence that has at least 80%, 85%, and 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:158-170. Some of the isolated antigen-binding proteins described comprise a light chain variable region (VL) sequence that has at least 80%, 85%, and 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:137-153. Some of the isolated antigen-binding proteins described comprise a VH sequence that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:158-170, and a VL that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:137-153. In some embodiments, the isolated antigen-binding proteins comprise (A) a heavy chain variable region (VH) comprising a sequence (i) selected from the group consisting of SEQ ID NOs:158-170, or (ii) as defined by (i) and containing one or more (e.g., five, ten, fifteen or twenty) amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; (B) a VL comprising a sequence (iii) selected from the group consisting of SEQ ID NOs:137-153, or (iv) as defined by (iii) containing one or more (e.g., five, ten, fifteen or twenty) amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; or (C) a VH of (A) and a VL of (B). In some embodiments, the isolated antigen-binding proteins comprise a heavy chain variable region (VH) comprising a sequence selected from the group consisting of SEQ ID NOs:158-170 and a VL comprising a sequence selected from the group consisting of SEQ ID NOs:137-153.
In one embodiment, the isolated antigen-binding protein comprises a heavy chain variable region (VH) comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:158, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:159, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:160, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:161, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:162, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:163, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:164, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:165, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:166, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:167, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:168, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:169, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VH comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:170, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In one embodiment, the isolated antigen-binding protein comprises a light chain variable region (VL) comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:137, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:138, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:139, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:140, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:141, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:142, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:143, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:144, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:145, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:146, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:147, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:148, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:149, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:150, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:151, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:152, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions. In another embodiment, the isolated antigen-binding protein comprises a VL comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:153, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In any of the above-mentioned VL and VH sequence defined embodiments, the isolated antigen-binding protein may be, for example, a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human (e.g., fully human) antibody, a humanized antibody, a chimeric antibody, a multi-specific antibody, or an antigen binding fragment thereof. Further, the antibody fragment of the isolated antigen-binding proteins may be a Fab fragment, and Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, or a single chain antibody molecule. For example, the isolated antigen binding protein may be a human monoclonal antibody, and may be, e.g., an IgG1-, IgG2-, IgG3-, or IgG4-type antibody. Further, the isolated antigen binding proteins may be neutralizing antigen binding proteins.
In any of the above-mentioned VL and VH sequence defined embodiments, the isolated antigen-binding protein may specifically bind to both human CRLR and human RAMP1 and not specifically bind to AM1, AM2 or a human amylin receptor (e.g., AMY1), for example, the isolated antigen binding protein may specifically bind to human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM, e.g., as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In any of the above-mentioned VL and VH sequence defined embodiments, the isolated antigen-binding protein may selectively inhibit human CGRP R, relative to the human the AM1, AM2 or AMY1 receptors, e.g., with a selectivity ratio of 100 or more, 250 or more, 500 or more, 750 or more, 1,000 or more, 2,500 or more, 5,000 or more or 10,000 or more, where the degree of selective inhibition may be determined using any suitable method, e.g., using a cAMP assay as described in the Examples herein. In any of the above-mentioned VL and VH sequence-defined embodiments, the isolated antigen-binding protein may have a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay, e.g., in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, e.g., the assay described in Example 5 herein.
In one aspect, the isolated antigen-binding proteins comprise a heavy chain sequence that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:29-41. Some of the isolated antigen-binding proteins described comprise a light chain sequence that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs:12-28. Some of the isolated antigen-binding proteins comprise a heavy chain sequence that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs: 29-41, and a light chain sequence that has at least 80%, 85%, 90% or 95% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NOs: 12-28. In some embodiments, the isolated antigen-binding proteins comprise (A) a heavy chain comprising a sequence (i) selected from the group consisting of SEQ ID NOs: 29-41, or (ii) as defined by (i) and containing one or more (e.g., five, ten, fifteen or twenty) amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; (B) a light chain comprising a sequence (iii) selected from the group consisting of SEQ ID NOs: 12-28, or (iv) as defined by (iii) containing one or more (e.g., five, ten, fifteen or twenty) amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; or (C) a heavy chain of (A) and a light chain of (B). In some embodiments, the isolated antigen-binding proteins comprise a heavy chain comprising a sequence selected from the group consisting of SEQ ID NOs: 29-41 and a light chain comprising a sequence selected from the group consisting of SEQ ID NOs: 12-28.
In one embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:29, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:12, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:30, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:13, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:31, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:14, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:32, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:15, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:33, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:16, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:29, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:17, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:34, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:18, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:33, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:19, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:29, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:20, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:35, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:21, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:36, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:22, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:37, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:23, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:38, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:23, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:33, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:24, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:39, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:25, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:40, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:26, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:41, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:27, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In another embodiment, the isolated antigen-binding protein comprises (A) a heavy chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:41, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions; and (B) a light chain comprising an amino acid sequence selected from the group consisting of (i) SEQ ID NO:28, (ii) a sequence that is at least 90% or 95% identical to the sequence defined by (i), and (iii) a sequence as defined by (i) containing up to ten amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions.
In any of the above-mentioned light and heavy chain sequence defined embodiments, the isolated antigen-binding protein may comprise the specified heavy and/or light chain sequence, but with a different signal peptide or with no signal peptide. In any of the above-mentioned light and heavy chain sequence defined embodiments, the isolated antigen-binding protein may be, for example, a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human (e.g., fully human) antibody, a humanized antibody, a chimeric antibody, a multi-specific antibody, or an antigen binding fragment thereof. Further, the antibody fragment of the isolated antigen-binding proteins may be a Fab fragment, and Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, or a single chain antibody molecule. For example, the isolated antigen binding protein may be a human monoclonal antibody, and may be, e.g., an IgG1-, IgG2-, IgG3-, or IgG4-type antibody. Further, the isolated antigen binding proteins may be neutralizing antigen binding proteins.
In any of the above-mentioned light and heavy chain sequence defined embodiments, the isolated antigen-binding protein may specifically bind to both human CRLR and human RAMP1 and not specifically bind to AM1, AM2 or a human amylin receptor (e.g., AMY1), for example, the isolated antigen binding protein may specifically bind to human CGRP R with a KD≦1 μM, ≦100 nM, ≦10 nM, or ≦5 nM, e.g., as determined using a FACS binding assay and analyzed, for example, using methods described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. In any of the above-mentioned light and heavy chain sequence defined embodiments, the isolated antigen-binding protein may selectively inhibit human CGRP R, relative to the human the AM1, AM2 or AMY1 receptors, e.g., with a selectivity ratio of 100 or more, 250 or more, 500 or more, 750 or more, 1,000 or more, 2,500 or more, 5,000 or more or 10,000 or more, where the degree of selective inhibition may be determined using any suitable method, e.g., using a cAMP assay as described in the Examples herein. In any of the above-mentioned light and heavy chain sequence-defined embodiments, the isolated antigen-binding protein may have a Ki of ≦100 nM, ≦10 nM, ≦1 nM, ≦0.5 nM or ≦0.1 nM in a CGRP binding competition assay, e.g., in a radiolabeled 125I-CGRP binding competition assay to membranes from cells expressing human CGRP R, e.g., the assay described in Example 5 herein.
In a further aspect, also provided are isolated nucleic acid polynucleotides that encode any of the CGRP R antigen-binding proteins summarized above. In one embodiment, the isolated polynucleotide comprises a sequence selected from the group consisting of SEQ ID NOs:175, 176, 178, 179, 180, 181, 182, 183, 186, 187, 188, 189, 191, 192, 193, 194, 195, 196, 197, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209 and 210. In another embodiment, the isolated polynucleotide comprises a sequence selected from the group consisting of SEQ ID NOs:224-258. In another embodiment, the isolated polynucleotide comprises a sequence capable of hybridizing under stringent hybridization conditions with a sequence selected from the group consisting of SEQ ID NOs:224-258. In another embodiment, the isolated polynucleotide comprises a sequence that is about 80%, 85%, 90% or 95% or more identical to a sequence selected from the group consisting of SEQ ID NOs:224-258. In some instances, the isolated nucleic acid molecules are operably-linked to a control sequence. In related embodiments, the isolated polynucleotides are incorporated into an expression vector.
Also included are cell lines transformed with expression vectors comprising isolated polynucleotides as described above. In a related aspect, also provided are expression vectors and host cells transformed or transfected with the expression vectors that comprise the aforementioned isolated nucleic acid molecules that encode CGRP R antigen-binding proteins described above
In another aspect, also provided is a method of preparing the antigen-binding proteins that includes the step of preparing the antigen binding protein from a host cell that secretes the antigen-binding protein. In some embodiments, the antigen binding protein is generated using an immunogen comprising soluble CGRP receptor. In some embodiments, such soluble CGRP receptor is obtained by co-expressing and purifying an N-terminal extracellular domain (ECD) of human CRLR and an ECD of human RAMP1, e.g., an ECD of human CRLR comprising SEQ ID NO: 6 and an ECD of RAMP1 comprising SEQ ID NO: 8, for example, as described in Examples 1 and 2 herein.
In yet another aspect, a pharmaceutical composition is provided comprising at least one of the antigen-binding proteins summarized above and a pharmaceutically acceptable excipient. In one embodiment, the pharmaceutical composition may comprise an additional active agent that is selected from the group consisting of a radioisotope, radionuclide, a toxin, or a therapeutic and a chemotherapeutic group.
In one aspect, the isolated antigen binding protein is effective to inhibit vasodialation and/or decrease neurogenic inflammation when administered to a patient. In one embodiment, the isolated antigen binding protein is effective to reduce the frequency and/or severity of headaches, for example, migraine headaches. For example, the antigen binding protein may be used as an acute treatment of migraine, and/or as a prophylactic treatment to prevent or reduce the frequency and/or severity of symptoms, particularly pain symptoms, associated with a migraine attack.
Other aspects further provide methods for treating or preventing a condition associated with CGRP R in a patient, comprising administering to a patient an effective amount of at least one isolated antigen-binding protein summarized above. In one embodiment, the condition is a headache, for example, a migraine headache or a cluster headache or another type of pain, e.g., a chronic pain; in another embodiment it is diabetes mellitus (type II); in another embodiment it is inflammation, particularly neurogenic inflammation; in another embodiment it is a cardiovascular disorder; in another embodiment it is a hemodynamic derangement associated with endotoxemia and sepsis; in another embodiment it is vasodialation.
In another aspect, also provided is a method of inhibiting binding of CGRP to human CGRP R, e.g., the extracellular portion of CGRP R, in a patient comprising administering an effective amount of at least one antigen-binding protein provided herein and/or summarized above.
These and other aspects will be described in greater detail herein. Each of the aspects provided can encompass various embodiments provided herein. It is therefore anticipated that each of the embodiments involving one element or combinations of elements can be included in each aspect described, and all such combinations of the above aspects and embodiments are expressly considered. Other features, objects, and advantages of the invention are apparent in the detailed description that follows.



BRIEF DESCRIPTION OF THE DRAWINGS
FIG. 1 shows an alignment of RAMP-1 sequences from human (SEQ ID NO:4), cynomolgus monkey (SEQ ID NO:215) and rat (SEQ ID NO:214).
FIG. 2 shows an alignment of CRLR sequences from human (SEQ ID NO:2), cynomolgus monkey (SEQ ID NO221) and rat (SEQ ID NO.220).
FIGS. 3A and 3B show phylogenetically-based sequence alignments of light chain CDRs from the indicated anti-CGRP receptor antibody clones having kappa light chains, and certain corresponding consensus sequences.
FIG. 4 shows phylogenetically-based sequence alignments of light chain CDRs from the indicated anti-CGRP receptor antibody clones having lambda light chains, and certain corresponding consensus sequences.
FIGS. 5A, 5B, 5C, 5D and 5E show phylogenetically-based sequence alignments of heavy chain CDRs from the indicated anti-CGRP receptor antibody clones, and certain corresponding consensus sequences.
FIG. 5F shows consensus sequences of exemplary anti-CGRP receptor antibody heavy chain CDRs disclosed herein.
FIG. 6 is a plot of data from two experiments showing percent inhibition of labeled ligand binding to CGRP R by 1092 anti-CGRP R hybridoma supernatants (diamonds) and 68 negative control supernatants (squares).
FIGS. 7A-D show exemplary cAMP assay IC50 data from cells expressing hCGRP receptor (FIG. 7A), hAM1 (FIG. 7B), hAM2 (FIG. 7C) and human amylin receptors (FIG. 7D) for three indicated anti-CGRP R mAbs.
FIG. 8 shows an example of 125I-CGRP binding data such as may be used to determine the Ki of mAbs to human CGRP receptor.
FIGS. 9A-D show Biacore competition data for selected antibodies disclosed herein.
FIG. 10 shows a FACS Kd determination of mAb 12G8.
FIG. 11 shows an alignment of cynomolgus (SEQ ID NO:215), human (SEQ ID NO:4), human chimeras (SEQ ID NOs: 217, 218, and 219), rat (SEQ NO:214), and rhesus RAMP1(SEQ ID NO:216) sequences.
FIGS. 12A-B shows an alignment of human (SEQ ID NO:2), cynomolgus (SEQ ID NO:221), rhesus (SEQ ID NO: 222), rat )SEQ ID NO:220), and human chimera (SEQ ID NO:223) CRLR sequences.
FIGS. 13A-13C show representative FACS data of different chimeric CGRP receptors binding to anti-CGRP R antibodies.
FIG. 14 shows peptide maps derived from AspN digestions of CGRP R alone (chromatogram A) and from digestion of a control sample containing CGRP R monoclonal antibody 12G8 (chromatogram B).
FIG. 15 shows AspN digestions of CGRP R in the presence of different concentrations of CGRP R neutralizing antibody.
FIG. 16 shows AspN digestions of CGRP R in the presence of different concentration of CGRP R neutralizing antibody, 4E4.
FIG. 17 shows immunohistochemistry staining intensity of cells expressing various receptor components with antibody 32H7.



DETAILED DESCRIPTION
The section headings used herein are for organizational purposes only and are not to be construed as limiting the subject matter described.
Unless otherwise defined herein, scientific and technical terms used in connection with the present application shall have the meanings that are commonly understood by those of ordinary skill in the art. Further, unless otherwise required by context, singular terms shall include pluralities and plural terms shall include the singular.
Generally, nomenclatures used in connection with, and techniques of, cell and tissue culture, molecular biology, immunology, microbiology, genetics and protein and nucleic acid chemistry and hybridization described herein are those well known and commonly used in the art. The methods and techniques of the present application are generally performed according to conventional methods well known in the art and as described in various general and more specific references that are cited and discussed throughout the present specification unless otherwise indicated. See, e.g., Sambrook et al., Molecular Cloning: A Laboratory Manual, 3rd ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (2001), Ausubel et al., Current Protocols in Molecular Biology, Greene Publishing Associates (1992), and Harlow and Lane Antibodies: A Laboratory Manual Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (1990), which are incorporated herein by reference. Enzymatic reactions and purification techniques are performed according to manufacturer's specifications, as commonly accomplished in the art or as described herein. The terminology used in connection with, and the laboratory procedures and techniques of, analytical chemistry, synthetic organic chemistry, and medicinal and pharmaceutical chemistry described herein are those well known and commonly used in the art. Standard techniques can be used for chemical syntheses, chemical analyses, pharmaceutical preparation, formulation, and delivery, and treatment of patients.
It should be understood that this invention is not limited to the particular methodology, protocols, and reagents, etc., described herein and as such may vary. The terminology used herein is for the purpose of describing particular embodiments only, and is not intended to limit the scope of the present invention, which is defined solely by the claims.
Other than in the operating examples, or where otherwise indicated, all numbers expressing quantities of ingredients or reaction conditions used herein should be understood as modified in all instances by the term “about.” The term “about” when used in connection with percentages means±1%.
Definitions
The term “polynucleotide” or “nucleic acid” includes both single-stranded and double-stranded nucleotide polymers. The nucleotides comprising the polynucleotide can be ribonucleotides or deoxyribonucleotides or a modified form of either type of nucleotide. Said modifications include base modifications such as bromouridine and inosine derivatives, ribose modifications such as 2′,3′-dideoxyribose, and internucleotide linkage modifications such as phosphorothioate, phosphorodithioate, phosphoroselenoate, phosphorodiselenoate, phosphoroanilothioate, phoshoraniladate and phosphoroamidate.
The term “oligonucleotide” means a polynucleotide comprising 200 or fewer nucleotides. In some embodiments, oligonucleotides are 10 to 60 bases in length. In other embodiments, oligonucleotides are 12, 13, 14, 15, 16, 17, 18, 19, or 20 to 40 nucleotides in length. Oligonucleotides may be single stranded or double stranded, e.g., for use in the construction of a mutant gene. Oligonucleotides may be sense or antisense oligonucleotides. An oligonucleotide can include a label, including a radiolabel, a fluorescent label, a hapten or an antigenic label, for detection assays. Oligonucleotides may be used, for example, as PCR primers, cloning primers or hybridization probes.
An “isolated nucleic acid molecule” means a DNA or RNA of genomic, mRNA, cDNA, or synthetic origin or some combination thereof which is not associated with all or a portion of a polynucleotide in which the isolated polynucleotide is found in nature, or is linked to a polynucleotide to which it is not linked in nature. For purposes of this disclosure, it should be understood that “a nucleic acid molecule comprising” a particular nucleotide sequence does not encompass intact chromosomes. Isolated nucleic acid molecules “comprising” specified nucleic acid sequences may include, in addition to the specified sequences, coding sequences for up to ten or even up to twenty other proteins or portions thereof, or may include operably linked regulatory sequences that control expression of the coding region of the recited nucleic acid sequences, and/or may include vector sequences.
Unless specified otherwise, the left-hand end of any single-stranded polynucleotide sequence discussed herein is the 5′ end; the left-hand direction of double-stranded polynucleotide sequences is referred to as the 5′ direction. The direction of 5′ to 3′ addition of nascent RNA transcripts is referred to as the transcription direction; sequence regions on the DNA strand having the same sequence as the RNA transcript that are 5′ to the 5′ end of the RNA transcript are referred to as “upstream sequences;” sequence regions on the DNA strand having the same sequence as the RNA transcript that are 3′ to the 3′ end of the RNA transcript are referred to as “downstream sequences.”
The term “control sequence” refers to a polynucleotide sequence that can affect the expression and processing of coding sequences to which it is ligated. The nature of such control sequences may depend upon the host organism. In particular embodiments, control sequences for prokaryotes may include a promoter, a ribosomal binding site, and a transcription termination sequence. For example, control sequences for eukaryotes may include promoters comprising one or a plurality of recognition sites for transcription factors, transcription enhancer sequences, and transcription termination sequence. “Control sequences” can include leader sequences and/or fusion partner sequences.
The term “vector” means any molecule or entity (e.g., nucleic acid, plasmid, bacteriophage or virus) used to transfer protein coding information into a host cell.
The term “expression vector” or “expression construct” refers to a vector that is suitable for transformation of a host cell and contains nucleic acid sequences that direct and/or control (in conjunction with the host cell) expression of one or more heterologous coding regions operatively linked thereto. An expression construct may include, but is not limited to, sequences that affect or control transcription, translation, and, if introns are present, affect RNA splicing of a coding region operably linked thereto.
As used herein, “operably linked” means that the components to which the term is applied are in a relationship that allows them to carry out their inherent functions under suitable conditions. For example, a control sequence in a vector that is “operably linked” to a protein coding sequence is ligated thereto so that expression of the protein coding sequence is achieved under conditions compatible with the transcriptional activity of the control sequences.
The term “host cell” means a cell that has been transformed, or is capable of being transformed, with a nucleic acid sequence and thereby expresses a gene of interest. The term includes the progeny of the parent cell, whether or not the progeny is identical in morphology or in genetic make-up to the original parent cell, so long as the gene of interest is present.
The term “transduction” means the transfer of genes from one bacterium to another, usually by bacteriophage. “Transduction” also refers to the acquisition and transfer of eukaryotic cellular sequences by replication defective retroviruses.
The term “transfection” means the uptake of foreign or exogenous DNA by a cell, and a cell has been “transfected” when the exogenous DNA has been introduced inside the cell membrane. A number of transfection techniques are well known in the art and are disclosed herein. See, e.g., Graham et al., 1973, Virology 52:456; Sambrook et al., 2001, Molecular Cloning: A Laboratory Manual, supra; Davis et al., 1986, Basic Methods in Molecular Biology, Elsevier; Chu et al., 1981, Gene 13:197. Such techniques can be used to introduce one or more exogenous DNA moieties into suitable host cells.
The term “transformation” refers to a change in a cell's genetic characteristics, and a cell has been transformed when it has been modified to contain new DNA or RNA. For example, a cell is transformed where it is genetically modified from its native state by introducing new genetic material via transfection, transduction, or other techniques. Following transfection or transduction, the transforming DNA may recombine with that of the cell by physically integrating into a chromosome of the cell, or may be maintained transiently as an episomal element without being replicated, or may replicate independently as a plasmid. A cell is considered to have been “stably transformed” when the transforming DNA is replicated with the division of the cell.
The terms “polypeptide” or “protein” are used interchangeably herein to refer to a polymer of amino acid residues. The terms also apply to amino acid polymers in which one or more amino acid residues is an analog or mimetic of a corresponding naturally occurring amino acid, as well as to naturally occurring amino acid polymers. The terms can also encompass amino acid polymers that have been modified, e.g., by the addition of carbohydrate residues to form glycoproteins, or phosphorylated. Polypeptides and proteins can be produced by a naturally-occurring and non-recombinant cell; or it is produced by a genetically-engineered or recombinant cell, and comprise molecules having the amino acid sequence of the native protein, or molecules having deletions from, additions to, and/or substitutions of one or more amino acids of the native sequence. The terms “polypeptide” and “protein” specifically encompass antigen binding proteins, e.g., CGRP R antigen-binding proteins, CGRP R binding proteins, antibodies, or sequences that have deletions from, additions to, and/or substitutions of one or more amino acids of an antigen-binding protein. The term “polypeptide fragment” refers to a polypeptide that has an amino-terminal deletion, a carboxyl-terminal deletion, and/or an internal deletion as compared with the full-length protein. Such fragments may also contain modified amino acids as compared with the full-length protein. In certain embodiments, fragments are about five to 500 amino acids long. For example, fragments may be at least 5, 6, 8, 10, 14, 20, 50, 70, 100, 110, 150, 200, 250, 300, 350, 400, or 450 amino acids long. Useful polypeptide fragments include immunologically functional fragments of antibodies, including binding domains. In the case of a CGRP R-binding antibody, useful fragments include but are not limited to a CDR region, a variable domain of a heavy or light chain, a portion of an antibody chain or just its variable domain including two CDRs, and the like. The “CGRP receptor”, or “CGRP R”, is understood to comprise RAMP1 and CRLR.
The term “isolated protein” (e.g., isolated antigen binding protein), “isolated polypeptide” or “isolated antibody” means that a subject protein, polypeptide or antibody (1) is free of at least some other proteins with which it would normally be found, (2) is essentially free of other proteins from the same source, e.g., from the same species, (3) is expressed by a cell from a different species, (4) has been separated from at least about 50 percent of polynucleotides, lipids, carbohydrates, or other materials with which it is associated in nature, (5) is operably associated (by covalent or noncovalent interaction) with a polypeptide with which it is not associated in nature, or (6) does not occur in nature. Typically, an “isolated protein”, “isolated polypeptide” or “isolated antibody” constitutes at least about 5%, at least about 10%, at least about 25%, or at least about 50% of a given sample. Genomic DNA, cDNA, mRNA or other RNA, of synthetic origin, or any combination thereof may encode such an isolated protein. Preferably, the isolated protein polypeptide or antibody is substantially free from other proteins or other polypeptides or other contaminants that are found in its natural environment that would interfere with its therapeutic, diagnostic, prophylactic, research or other use.
A “variant” of a polypeptide (e.g., an antigen binding protein, or an antibody) comprises an amino acid sequence wherein one or more amino acid residues are inserted into, deleted from and/or substituted into the amino acid sequence relative to another polypeptide sequence. Variants include fusion proteins.
A “derivative” of a polypeptide is a polypeptide (e.g., an antigen binding protein, or an antibody) that has been chemically modified in some manner distinct from insertion, deletion, or substitution variants, e.g., via conjugation to another chemical moiety.
The term “naturally occurring” as used throughout the specification in connection with biological materials such as polypeptides, nucleic acids, host cells, and the like, refers to materials which are found in nature.
An “antigen binding protein” as used herein means a protein that specifically binds a specified target antigen, such as CGRP R, particularly primate, e.g., human CGRP R. A CGRP R antigen binding protein specifically binds the human CGRP receptor.
An antigen binding protein is said to “specifically bind” its target when the dissociation constant (KD) is ≦10−6 M. The antibody specifically binds the target antigen with “high affinity” when the KD is ≦1×10−8 M. In one embodiment, the antibodies will bind to CGRP R, or human CGRP R with a KD≦5×10−7; in another embodiment the antibodies will bind with a KD≦1×10−7; in another embodiment the antibodies will bind with a KD≦5×10−8; in another embodiment the antibodies will bind with a KD≦1×10−8; in another embodiment the antibodies will bind with a KD≦5×10−9; in another embodiment the antibodies will bind with a KD≦1×10−9; in another embodiment the antibodies will bind with a KD≦5×10−10; in another embodiment the antibodies will bind with a KD≦1×10−10.
An antibody, antigen binding fragment thereof or antigen binding protein “selectively inhibits” a specific receptor relative to other receptors when the IC50 of the antibody, antigen binding fragment thereof or antigen binding protein in an inhibition assay of the specific receptor is at least 50-fold lower than the IC50 in an inhibition assay of another “reference” receptor. The “selectivity ratio” is the IC50 of the reference receptor divided by IC50 of the specific receptor. An antibody, antigen binding fragment thereof or antigen binding protein selectively inhibits the human CGRP receptor if the IC50 of the antibody, antigen binding fragment thereof or antigen binding protein in a cAMP assay, e.g., the cAMP inhibition assay as described in Example 4 herein, is at least 50-fold lower than the IC50 of that same antibody, antigen binding fragment thereof or antigen binding protein in an inhibition assay of the human AM1, AM2 or an amylin receptor (e.g., AMY1). By way of non-limiting example, if the IC50 of a specific anti-CGRP R antibody in a cAMP assay of hCGRP R is, e.g., between 0.1 nM and 20 nM, and the IC50 of the same antibody in a cAMP assay of the hAM1, hAM2 or human AMY1 receptor is 1000 nM or more, that antibody selectively inhibits the hCGRP receptor. An antigen binding protein that selectively inhibits a specific receptor is also understood to be a neutralizing antigen binding protein with respect to that receptor.
“Antigen binding region” means a protein, or a portion of a protein, that specifically binds a specified antigen. For example, that portion of an antigen binding protein that contains the amino acid residues that interact with an antigen and confer on the antigen binding protein its specificity and affinity for the antigen is referred to as “antigen binding region.” An antigen binding region typically includes one or more “complementary binding regions” (“CDRs”). Certain antigen binding regions also include one or more “framework” regions. A “CDR” is an amino acid sequence that contributes to antigen binding specificity and affinity. “Framework” regions can aid in maintaining the proper conformation of the CDRs to promote binding between the antigen binding region and an antigen.
In certain aspects, recombinant antigen binding proteins that bind CGRP R protein, or human CGRP R, are provided. In this context, a “recombinant protein” is a protein made using recombinant techniques, i.e., through the expression of a recombinant nucleic acid as described herein. Methods and techniques for the production of recombinant proteins are well known in the art.
The term “antibody” refers to an intact immunoglobulin of any isotype, or an antigen binding fragment thereof that can compete with the intact antibody for specific binding to the target antigen, and includes, for instance, chimeric, humanized, fully human, and bispecific antibodies. An “antibody” as such is a species of an antigen binding protein. An intact antibody generally will comprise at least two full-length heavy chains and two full-length light chains, but in some instances may include fewer chains such as antibodies naturally occurring in camelids which may comprise only heavy chains. Antibodies may be derived solely from a single source, or may be “chimeric,” that is, different portions of the antibody may be derived from two different antibodies as described further below. The antigen binding proteins, antibodies, or binding fragments may be produced in hybridomas, by recombinant DNA techniques, or by enzymatic or chemical cleavage of intact antibodies. Unless otherwise indicated, the term “antibody” includes, in addition to antibodies comprising two full-length heavy chains and two full-length light chains, derivatives, variants, fragments, and mutations thereof, examples of which are described below.
The term “light chain” includes a full-length light chain and fragments thereof having sufficient variable region sequence to confer binding specificity. A full-length light chain includes a variable region domain, VL, and a constant region domain, CL. The variable region domain of the light chain is at the amino-terminus of the polypeptide. Light chains include kappa chains and lambda chains.
The term “heavy chain” includes a full-length heavy chain and fragments thereof having sufficient variable region sequence to confer binding specificity. A full-length heavy chain includes a variable region domain, VH, and three constant region domains, CH1, CH2, and CH3. The VH domain is at the amino-terminus of the polypeptide, and the CH domains are at the carboxyl-terminus, with the CH3 being closest to the carboxy-terminus of the polypeptide. Heavy chains may be of any isotype, including IgG (including IgG1, IgG2, IgG3 and IgG4 subtypes), IgA (including IgA1 and IgA2 subtypes), IgM and IgE.
The term “signal sequence”, “leader sequence” or “signal peptide” refers to a short (3-60 amino acids long) peptide chain that directs the transport of a protein. Signal peptides may also be called targeting signals, signal sequences, transit peptides, or localization signals. Some signal peptides are cleaved from the protein by signal peptidase after the proteins are transported, such that the biologically active form of the protein (e.g., an antigen binding protein as described herein) is the cleaved, shorter form. Accordingly, terms such as “antibody comprising a heavy chain . . . ”, “antibody comprising a light chain . . . ”, etc., where the antibody is characterized as having a heavy and/or light chain with a particular identified sequence, are understood to include antibodies having the specific identified sequences, antibodies having the specific identified sequences except that the signal sequences are replaced by different signal sequences, as well as antibodies having the identified sequences, minus any signal sequences.
The term “antigen binding fragment” (or simply “fragment”) of an antibody or immunoglobulin chain (heavy or light chain), as used herein, comprises a portion (regardless of how that portion is obtained or synthesized) of an antibody that lacks at least some of the amino acids present in a full-length chain but which is capable of specifically binding to an antigen. Such fragments are biologically active in that they bind specifically to the target antigen and can compete with other antigen binding proteins, including intact antibodies, for specific binding to a given epitope. In one aspect, such a fragment will retain at least one CDR present in the full-length light or heavy chain, and in some embodiments will comprise a single heavy chain and/or light chain or portion thereof. These biologically active fragments may be produced by recombinant DNA techniques, or may be produced by enzymatic or chemical cleavage of antigen binding proteins, including intact antibodies. Immunologically functional immunoglobulin fragments include, but are not limited to, Fab, Fab′, F(ab′)2, Fv, domain antibodies and single-chain antibodies, and may be derived from any mammalian source, including but not limited to human, mouse, rat, camelid or rabbit. It is contemplated further that a functional portion of the antigen binding proteins disclosed herein, for example, one or more CDRs, could be covalently bound to a second protein or to a small molecule to create a therapeutic agent directed to a particular target in the body, possessing bifunctional therapeutic properties, or having a prolonged serum half-life.
An “Fab fragment” is comprised of one light chain and the CH1 and variable regions of one heavy chain. The heavy chain of a Fab molecule cannot form a disulfide bond with another heavy chain molecule.
An “Fc” region contains two heavy chain fragments comprising the CH1 and CH2 domains of an antibody. The two heavy chain fragments are held together by two or more disulfide bonds and by hydrophobic interactions of the CH3 domains.
An “Fab′ fragment” contains one light chain and a portion of one heavy chain that contains the VH domain and the CH1 domain and also the region between the CH1 and CH2 domains, such that an interchain disulfide bond can be formed between the two heavy chains of two Fab′ fragments to form an F(ab′)2 molecule.
An “F(ab′)2 fragment” contains two light chains and two heavy chains containing a portion of the constant region between the CH1 and CH2 domains, such that an interchain disulfide bond is formed between the two heavy chains. A F(ab′)2 fragment thus is composed of two Fab′ fragments that are held together by a disulfide bond between the two heavy chains.
The “Fv region” comprises the variable regions from both the heavy and light chains, but lacks the constant regions.
“Single-chain antibodies” are Fv molecules in which the heavy and light chain variable regions have been connected by a flexible linker to form a single polypeptide chain, which forms an antigen-binding region. Single chain antibodies are discussed in detail in International Patent Application Publication No. WO 88/01649 and U.S. Pat. Nos. 4,946,778 and 5,260,203, the disclosures of which are incorporated by reference.
A “domain antibody” is an immunologically functional immunoglobulin fragment containing only the variable region of a heavy chain or the variable region of a light chain. In some instances, two or more VH regions are covalently joined with a peptide linker to create a bivalent domain antibody. The two VH regions of a bivalent domain antibody may target the same or different antigens.
A “bivalent antigen binding protein” or “bivalent antibody” comprises two antigen binding sites. In some instances, the two binding sites have the same antigen specificities. Bivalent antigen binding proteins and bivalent antibodies may be bispecific, see, infra.
A “multispecific antigen binding protein” or “multispecific antibody” is one that targets more than one antigen or epitope.
A “bispecific,” “dual-specific” or “bifunctional” antigen binding protein or antibody is a hybrid antigen binding protein or antibody, respectively, having two different antigen binding sites. Bispecific antigen binding proteins and antibodies are a species of multispecific antigen binding protein or multispecific antibody and may be produced by a variety of methods including, but not limited to, fusion of hybridomas or linking of Fab′ fragments. See, e.g., Songsivilai and Lachmann, 1990, Clin. Exp. Immunol. 79:315-321; Kostelny et al., 1992, J. Immunol. 148:1547-1553. The two binding sites of a bispecific antigen binding protein or antibody will bind to two different epitopes, which may reside on the same or different protein targets.
The term “neutralizing antigen binding protein” or “neutralizing antibody” refers to an antigen binding protein or antibody, respectively, that binds to a ligand, prevents binding of the ligand to its binding partner and interrupts the biological response that otherwise would result from the ligand binding to its binding partner. In assessing the binding and specificity of an antigen binding protein, e.g., an antibody or immunologically functional antigen binding fragment thereof, an antibody or fragment will substantially inhibit binding of a ligand to its binding partner when an excess of antibody reduces the quantity of binding partner bound to the ligand by at least about 20%, 30%, 40%, 50%, 60%, 70%, 80%, 85%, 90%, 95%, 97%, 99% or more (as measured in an in vitro competitive binding assay). In the case of a CGRP R binding protein, such a neutralizing molecule will diminish the ability of CGRP R to bind CGRP.
The term “compete”, when used in the context of antigen binding proteins that may bind the same region on a target antigen, means competition between antigen binding proteins is determined by an assay in which the antigen binding protein (e.g., antibody or immunologically functional antigen binding fragment thereof) under test prevents or inhibits specific binding of a reference antigen binding protein (e.g., a ligand, or a reference antibody) to a common antigen (e.g., CGRP R or an antigen binding fragment thereof). Any of a number of competitive binding assays can be used, for example: solid phase direct or indirect radioimmunoassay (RIA), solid phase direct or indirect enzyme immunoassay (EIA), sandwich competition assay (see, e.g., Stahli et al., 1983, Methods in Enzymology 9:242-253); solid phase direct biotin-avidin EIA (see, e.g., Kirkland et al., 1986, J. Immunol. 137:3614-3619) solid phase direct labeled assay, solid phase direct labeled sandwich assay (see, e.g., Harlow and Lane, 1988, Antibodies, A Laboratory Manual, Cold Spring Harbor Press); solid phase direct label RIA using 1-125 label (see, e.g., Morel et al., 1988, Molec. Immunol. 25:7-15); solid phase direct biotin-avidin EIA (see, e.g., Cheung, et al., 1990, Virology 176:546-552); and direct labeled RIA (Moldenhauer et al., 1990, Scand. J. Immunol. 32:77-82). Such an assay may involve the use of purified antigen bound to a solid surface or cells bearing either of these, an unlabelled test antigen binding protein and a labeled reference antigen binding protein. Competitive inhibition may measured by determining the amount of label bound to the solid surface or cells in the presence of the test antigen binding protein. Antigen binding proteins identified by competition assay (competing antigen binding proteins) include antigen binding proteins binding to the same epitope as the reference antigen binding proteins and antigen binding proteins binding to an adjacent epitope sufficiently proximal to the epitope bound by the reference antigen binding protein for stearic hindrance to occur. Usually, when a competing antigen binding protein is present in excess, it will inhibit specific binding of a reference antigen binding protein to a common antigen by at least 40%, 45%, 50%, 55%, 60%, 65%, 70% or 75%. In some instance, binding is inhibited by at least 80%, 85%, 90%, 95%, or 97% or more. Competitive inhibition may also be measured by immobilizing a reference antigen binding protein to a substrate, e.g., a “sensor chip”, capturing antigen on the substrate via binding to the reference antibody, and assaying whether a different antigen binding protein (a competing antigen binding protein) can additionally bind to the antigen. An example of the latter competitive binding assay employs a Biacore analysis, and is described in Example 7 herein.
The term “antigen” or “immunogen” refers to a molecule or a portion of a molecule capable of being bound by a selective binding agent, such as an antigen binding protein (including, e.g., an antibody or immunological functional antigen binding fragment thereof), and additionally capable of being used in an animal to produce antibodies capable of binding to that antigen. An antigen may possess one or more epitopes that are capable of interacting with different antigen binding proteins, e.g., antibodies.
The term “epitope” is the portion of a molecule that is bound by an antigen binding protein (for example, an antibody). The term includes any determinant capable of specifically binding to an antigen binding protein, such as an antibody or to a T-cell receptor. An epitope can be contiguous or non-contiguous (e.g., (i) in a single-chain polypeptide, amino acid residues that are not contiguous to one another in the polypeptide sequence but that within in context of the molecule are bound by the antigen binding protein, or (ii) in a multimeric receptor, e.g., CGRP R, comprising two or more individual components, e.g., RAMP1 and CRLR, amino acid residues present on two or more of the individual components, but that within the context of the multimeric receptor are bound by the antigen binding protein). In certain embodiments, epitopes may be mimetic in that they comprise a three dimensional structure that is similar to an epitope used to generate the antigen binding protein, yet comprise none or only some of the amino acid residues found in that epitope used to generate the antigen binding protein. Most often, epitopes reside on proteins, but in some instances may reside on other kinds of molecules, such as nucleic acids. Epitope determinants may include chemically active surface groupings of molecules such as amino acids, sugar side chains, phosphoryl or sulfonyl groups, and may have specific three dimensional structural characteristics, and/or specific charge characteristics. Generally, antibodies specific for a particular target antigen will preferentially recognize an epitope on the target antigen in a complex mixture of proteins and/or macromolecules.
The term “identity” refers to a relationship between the sequences of two or more polypeptide molecules or two or more nucleic acid molecules, as determined by aligning and comparing the sequences. “Percent identity” means the percent of identical residues between the amino acids or nucleotides in the compared molecules and is calculated based on the size of the smallest of the molecules being compared. For these calculations, gaps in alignments (if any) must be addressed by a particular mathematical model or computer program (i.e., an “algorithm”). Methods that can be used to calculate the identity of the aligned nucleic acids or polypeptides include those described in Computational Molecular Biology, (Lesk, A. M., ed.), 1988, New York: Oxford University Press; Biocomputing Informatics and Genome Projects, (Smith, D. W., ed.), 1993, New York: Academic Press; Computer Analysis of Sequence Data, Part I, (Griffin, A. M., and Griffin, H. G., eds.), 1994, New Jersey: Humana Press; von Heinje, G., 1987, Sequence Analysis in Molecular Biology, New York: Academic Press; Sequence Analysis Primer, (Gribskov, M. and Devereux, J., eds.), 1991, New York: M. Stockton Press; and Carillo et al., 1988, SIAM J. Applied Math. 48:1073.
In calculating percent identity, the sequences being compared are aligned in a way that gives the largest match between the sequences. The computer program used to determine percent identity is the GCG program package, which includes GAP (Devereux et al., 1984, Nucl. Acid Res. 12:387; Genetics Computer Group, University of Wisconsin, Madison, Wis.). The computer algorithm GAP is used to align the two polypeptides or polynucleotides for which the percent sequence identity is to be determined. The sequences are aligned for optimal matching of their respective amino acid or nucleotide (the “matched span”, as determined by the algorithm). A gap opening penalty (which is calculated as 3× the average diagonal, wherein the “average diagonal” is the average of the diagonal of the comparison matrix being used; the “diagonal” is the score or number assigned to each perfect amino acid match by the particular comparison matrix) and a gap extension penalty (which is usually 1/10 times the gap opening penalty), as well as a comparison matrix such as PAM 250 or BLOSUM 62 are used in conjunction with the algorithm. In certain embodiments, a standard comparison matrix (see, Dayhoff et al., 1978, Atlas of Protein Sequence and Structure 5:345-352 for the PAM 250 comparison matrix; Henikoff et al., 1992, Proc. Natl. Acad. Sci. U.S.A. 89:10915-10919 for the BLOSUM 62 comparison matrix) is also used by the algorithm.
Recommended parameters for determining percent identity for polypeptides or nucleotide sequences using the GAP program are the following:
Algorithm: Needleman et al., 1970, J. Mol. Biol. 48:443-453;
Comparison matrix: BLOSUM 62 from Henikoff et al., 1992, supra;
Gap Penalty: 12 (but with no penalty for end gaps)
Gap Length Penalty: 4
Threshold of Similarity: 0
Certain alignment schemes for aligning two amino acid sequences may result in matching of only a short region of the two sequences, and this small aligned region may have very high sequence identity even though there is no significant relationship between the two full-length sequences. Accordingly, the selected alignment method (GAP program) can be adjusted if so desired to result in an alignment that spans at least 50 contiguous amino acids of the target polypeptide.
As used herein, “substantially pure” means that the described species of molecule is the predominant species present, that is, on a molar basis it is more abundant than any other individual species in the same mixture. In certain embodiments, a substantially pure molecule is a composition wherein the object species comprises at least 50% (on a molar basis) of all macromolecular species present. In other embodiments, a substantially pure composition will comprise at least 80%, 85%, 90%, 95%, or 99% of all macromolecular species present in the composition. In other embodiments, the object species is purified to essential homogeneity wherein contaminating species cannot be detected in the composition by conventional detection methods and thus the composition consists of a single detectable macromolecular species.
The term “treating” refers to any indicia of success in the treatment or amelioration of an injury, pathology or condition, including any objective or subjective parameter such as abatement; remission; diminishing of symptoms or making the injury, pathology or condition more tolerable to the patient; slowing in the rate of degeneration or decline; making the final point of degeneration less debilitating; improving a patient's physical or mental well-being. The treatment or amelioration of symptoms can be based on objective or subjective parameters; including the results of a physical examination, neuropsychiatric exams, and/or a psychiatric evaluation. For example, certain methods presented herein successfully treat migraine headaches either prophylactically or as an acute treatment, decreasing the frequency of migraine headaches, decreasing the severity of migraine headaches, and/or ameliorating a symptom associated with migraine headaches.
An “effective amount” is generally an amount sufficient to reduce the severity and/or frequency of symptoms, eliminate the symptoms and/or underlying cause, prevent the occurrence of symptoms and/or their underlying cause, and/or improve or remediate the damage that results from or is associated with migraine headache. In some embodiments, the effective amount is a therapeutically effective amount or a prophylactically effective amount. A “therapeutically effective amount” is an amount sufficient to remedy a disease state (e.g. migraine headache) or symptoms, particularly a state or symptoms associated with the disease state, or otherwise prevent, hinder, retard or reverse the progression of the disease state or any other undesirable symptom associated with the disease in any way whatsoever. A “prophylactically effective amount” is an amount of a pharmaceutical composition that, when administered to a subject, will have the intended prophylactic effect, e.g., preventing or delaying the onset (or reoccurrence) of migraine headache, or reducing the likelihood of the onset (or reoccurrence) of migraine headache or migraine headache symptoms. The full therapeutic or prophylactic effect does not necessarily occur by administration of one dose, and may occur only after administration of a series of doses. Thus, a therapeutically or prophylactically effective amount may be administered in one or more administrations.
“Amino acid” includes its normal meaning in the art. The twenty naturally-occurring amino acids and their abbreviations follow conventional usage. See, Immunology-A Synthesis, 2nd Edition, (E. S. Golub and D. R. Green, eds.), Sinauer Associates: Sunderland, Mass. (1991), incorporated herein by reference for any purpose. Stereoisomers (e.g., D-amino acids) of the twenty conventional amino acids, unnatural amino acids such as α-,α-disubstituted amino acids, N-alkyl amino acids, and other unconventional amino acids may also be suitable components for polypeptides and are included in the phrase “amino acid.” Examples of unconventional amino acids include: 4-hydroxyproline, γ-carboxyglutamate, ε-N,N,N-trimethyllysine, ε-N-acetyllysine, O-phosphoserine, N-acetylserine, N-formylmethionine, 3-methylhistidine, 5-hydroxylysine, σ-N-methylarginine, and other similar amino acids and imino acids (e.g., 4-hydroxyproline). In the polypeptide notation used herein, the left-hand direction is the amino terminal direction and the right-hand direction is the carboxyl-terminal direction, in accordance with standard usage and convention.
General Overview
Antigen-binding proteins that bind CGRP R protein, including human CGRP R (hCGRP R) protein are provided herein. The antigen binding proteins provided are polypeptides into which one or more complementary determining regions (CDRs), as described herein, are embedded and/or joined. In some antigen binding proteins, the CDRs are embedded into a “framework” region, which orients the CDR(s) such that the proper antigen binding properties of the CDR(s) is achieved. In general, antigen binding proteins that are provided can interfere with, block, reduce or modulate the interaction between CGRP and CGRP R.
Certain antigen binding proteins described herein are antibodies or are derived from antibodies. In certain embodiments, the polypeptide structure of the antigen binding proteins is based on antibodies, including, but not limited to, monoclonal antibodies, bispecific antibodies, minibodies, domain antibodies, synthetic antibodies (sometimes referred to herein as “antibody mimetics”), chimeric antibodies, humanized antibodies, human antibodies, antibody fusions (sometimes referred to herein as “antibody conjugates”), and fragments thereof. The various structures are further described herein below.
The antigen binding proteins provided herein have been demonstrated to bind to CGRP R, in particular human CGRP R. As described further in the examples below, certain antigen binding proteins were tested and found to bind to epitopes different from those bound by a number of other antibodies directed against one or the other of the components of CGRP R. The antigen binding proteins that are provided compete with CGRP and thereby prevent CGRP from binding to its receptor. As a consequence, the antigen binding proteins provided herein are capable of inhibiting CGRP R activity. In particular, antigen binding proteins binding to these epitopes can have one or more of the following activities: inhibiting, inter alia, induction of CGRP R signal transduction pathways, inhibiting vasodialation, causing vasoconstriction, decreasing inflammation, e.g., neurogenic inflammation, and other physiological effects induced by CGRP R upon CGRP binding.
The antigen binding proteins that are disclosed herein have a variety of utilities. Some of the antigen binding proteins, for instance, are useful in specific binding assays, affinity purification of CGRP R, in particular hCGRP R or its ligands and in screening assays to identify other antagonists of CGRP R activity. Some of the antigen-binding proteins are useful for inhibiting binding of CGRP to CGRP R.
The antigen-binding proteins can be used in a variety of treatment applications, as explained herein. For example, certain CGRP R antigen-binding proteins are useful for treating conditions associated with CGRP R mediated signaling, such as reducing, alleviating, or treating the frequency and/or severity of migraine headache, reducing, alleviating, or treating cluster headache, reducing, alleviating, or treating chronic pain, alleviating or treating diabetes mellitus (type II), reducing, alleviating, or treating cardiovascular disorders, and reducing, alleviating, or treating hemodynamic derangements associated with endotoxemia and sepsis in a patient. Other uses for the antigen binding proteins include, for example, diagnosis of CGRP R-associated diseases or conditions and screening assays to determine the presence or absence of CGRP R. Some of the antigen binding proteins described herein are useful in treating consequences, symptoms, and/or the pathology associated with CGRP R activity. These include, but are not limited to, various types of migraine headaches.
CGRP Receptor
The antigen binding proteins disclosed herein bind to CGRP R, in particular human CGRP R. CGRP R is a multimer that includes both CRLR and RAMP1. The nucleotide sequence of human CRLR is provided herein as SEQ ID NO:1. The amino acid sequence of human CRLR is provided herein as SEQ ID NO:2. The nucleotide sequence of human RAMP1 is provided herein as SEQ ID NO:3. The amino acid sequence of human RAMP1 is provided herein as SEQ ID NO:4. The antigen binding proteins described herein bind the extracellular portion of CGRP R, which comprises the extracellular portions of CRLR and RAMP1. An exemplary extracellular domain (“ECD”) of human CRLR is encoded by the nucleotide sequence presented as SEQ ID NO:5, and has the amino acid sequence presented as SEQ ID NO:6. This sequence includes a signal peptide; an exemplary mature (minus the signal peptide) CRLR ECD has the amino acid sequence presented as SEQ ID NO:10. An exemplary ECD of human RAMP1 is encoded by the nucleotide sequence presented as SEQ ID NO:7, and has the amino acid sequence presented as SEQ ID NO:8. This sequence includes a signal peptide; an exemplary mature (minus the signal peptide) RAMP1 ECD has the amino acid sequence presented as SEQ ID NO:11. As described below, CGRP R proteins may also include fragments. As used herein, the terms are used interchangeably to mean a receptor, in particular, unless otherwise specified, a human receptor that binds specifically to CGRP.
The term CGRP R also includes post-translational modifications of the CGRP R amino acid sequence, for example, possible N-linked glycosylation sites. Thus, the antigen binding proteins may bind to or be generated from proteins glycosylated at one or more of the positions.
CGRP Receptor Binding Proteins
A variety of selective binding agents useful for regulating the activity of CGRP R are provided. These agents include, for instance, antigen binding proteins that contain an antigen binding domain (e.g., single chain antibodies, domain antibodies, immunoadhesions, and polypeptides with an antigen binding region) and specifically bind to CGRP R, in particular human CGRP R. Some of the agents, for example, are useful in inhibiting the binding of CGRP to CGRP R, and can thus be used to inhibit, interfere with or modulate one or more activities associated with CGRP R signaling.
In general, the antigen binding proteins that are provided typically comprise one or more CDRs as described herein (e.g., 1, 2, 3, 4, 5 or 6). In some instances, the antigen binding protein comprises (a) a polypeptide structure and (b) one or more CDRs that are inserted into and/or joined to the polypeptide structure. The polypeptide structure can take a variety of different forms. For example, it can be, or comprise, the framework of a naturally occurring antibody, or fragment or variant thereof, or may be completely synthetic in nature. Examples of various polypeptide structures are further described below.
In certain embodiments, the polypeptide structure of the antigen binding proteins is an antibody or is derived from an antibody, including, but not limited to, monoclonal antibodies, bispecific antibodies, minibodies, domain antibodies, synthetic antibodies (sometimes referred to herein as “antibody mimetics”), chimeric antibodies, humanized antibodies, antibody fusions (sometimes referred to as “antibody conjugates”), and portions or fragments of each, respectively. In some instances, the antigen binding protein is an immunological fragment of an antibody (e.g., a Fab, a Fab′, a F(ab′)2, or a scFv). The various structures are further described and defined herein.
Certain of the antigen binding proteins as provided herein specifically bind to human CGRP R. In a specific embodiment, the antigen binding protein specifically binds to human CGRP R protein comprising human CRLR having the amino acid sequence of SEQ ID NO:2 and human RAMP1 having the amino acid sequence of SEQ ID NO:4.
In embodiments where the antigen binding protein is used for therapeutic applications, an antigen binding protein can inhibit, interfere with or modulate one or more biological activities of CGRP R. In this case, an antigen binding protein binds specifically and/or substantially inhibits binding of human CGRP R to CGRP when an excess of antibody reduces the quantity of human CGRP R bound to CGRP, or vice versa, by at least about 20%, 30%, 40%, 50%, 60%, 70%, 80%, 85%, 90%, 95%, 97%, 99% or more (for example by measuring binding in an in vitro competitive binding assay).
Naturally Occurring Antibody Structure
Some of the antigen binding proteins that are provided have the structure typically associated with naturally occurring antibodies. The structural units of these antibodies typically comprise one or more tetramers, each composed of two identical couplets of polypeptide chains, though some species of mammals also produce antibodies having only a single heavy chain. In a typical antibody, each pair or couplet includes one full-length “light” chain (in certain embodiments, about 25 kDa) and one full-length “heavy” chain (in certain embodiments, about 50-70 kDa). Each individual immunoglobulin chain is composed of several “immunoglobulin domains”, each consisting of roughly 90 to 110 amino acids and expressing a characteristic folding pattern. These domains are the basic units of which antibody polypeptides are composed. The amino-terminal portion of each chain typically includes a variable domain that is responsible for antigen recognition. The carboxy-terminal portion is more conserved evolutionarily than the other end of the chain and is referred to as the “constant region” or “C region”. Human light chains generally are classified as kappa and lambda light chains, and each of these contains one variable domain and one constant domain. Heavy chains are typically classified as mu, delta, gamma, alpha, or epsilon chains, and these define the antibody's isotype as IgM, IgD, IgG, IgA, and IgE, respectively. IgG has several subtypes, including, but not limited to, IgG1, IgG2, IgG3, and IgG4. IgM subtypes include IgM, and IgM2. IgA subtypes include IgA1 and IgA2. In humans, the IgA and IgD isotypes contain four heavy chains and four light chains; the IgG and IgE isotypes contain two heavy chains and two light chains; and the IgM isotype contains five heavy chains and five light chains. The heavy chain C region typically comprises one or more domains that may be responsible for effector function. The number of heavy chain constant region domains will depend on the isotype. IgG heavy chains, for example, each contain three C region domains known as CH1, CH2 and CH3. The antibodies that are provided can have any of these isotypes and subtypes. In certain embodiments, the CGRP R antibody is of the IgG1, IgG2, or IgG4 subtype.
In full-length light and heavy chains, the variable and constant regions are joined by a “J” region of about twelve or more amino acids, with the heavy chain also including a “D” region of about ten more amino acids. See, e.g., Fundamental Immunology, 2nd ed., Ch. 7 (Paul, W., ed.) 1989, New York: Raven Press (hereby incorporated by reference in its entirety for all purposes). The variable regions of each light/heavy chain pair typically form the antigen binding site.
One example of an IgG2 heavy constant domain of an exemplary CGRP R monoclonal antibody has the amino acid sequence:







ASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGV


 


HTFPAVLQSSGLYSLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVER


 


KCCVECPPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDP


 


EVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDWLNGKEYKC


 


KVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSREEMTKNQVSLTCLVKG


 


FYPSDIAVEWESNGQPENNYKTTPPMLDSDGSFFLYSKLTVDKSRWQQGN


 


VFSCSVMHEALHNHYTQKSLSLSPGK


(the last 326 residues of the sequence shown as


SEQ. ID NO: 29).






One example of a kappa light Constant domain of an exemplary CGRP R monoclonal antibody has the amino acid sequence:







RTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSG


 


NSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTK


 


SFNRGEC


(the last 107 residues of the sequence shown as


SEQ ID NO: 14).






Variable regions of immunoglobulin chains generally exhibit the same overall structure, comprising relatively conserved framework regions (FR) joined by three hypervariable regions, more often called “complementarity determining regions” or CDRs. The CDRs from the two chains of each heavy chain/light chain pair mentioned above typically are aligned by the framework regions to form a structure that binds specifically with a specific epitope on the target protein (e.g., CGRP R). From N-terminal to C-terminal, naturally-occurring light and heavy chain variable regions both typically conform with the following order of these elements: FR1, CDR1, FR2, CDR2, FR3, CDR3 and FR4. A numbering system has been devised for assigning numbers to amino acids that occupy positions in each of these domains. This numbering system is defined in Kabat Sequences of Proteins of Immunological Interest (1987 and 1991, NIH, Bethesda, Md.), or Chothia & Lesk, 1987, J. Mol. Biol. 196:901-917; Chothia et al., 1989, Nature 342:878-883.
The various heavy chain and light chain variable regions provided herein are depicted in Table 3. Each of these variable regions may be attached to the above heavy and light chain constant regions to form a complete antibody heavy and light chain, respectively. Further, each of the so generated heavy and light chain sequences may be combined to form a complete antibody structure. It should be understood that the heavy chain and light chain variable regions provided herein can also be attached to other constant domains having different sequences than the exemplary sequences listed above.
Specific examples of some of the full length light and heavy chains of the antibodies that are provided and their corresponding amino acid sequences are summarized in Tables 2A and 2B. Table 2A shows exemplary light chain sequences, and Table 2B shows exemplary heavy chain sequences.







TABLE 2A







Exemplary Antibody Light Chain Amino Acid Sequences











SEQ ID

Contained




NO:
Designation
in Clone
Sequence














12
L1
01E11 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSVSEAPGQKVTISC






SGSSSNIGNNYVSWYQQLPGTAPKLLIYDNNKRPSGIPDRFSGS





KSGTSATLGITGLQTGDEADYYCGTWDSRLSAVVFGGGTKLTVL





GQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKA





DGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ





VTHEGSTVEKTVAPTECS


 


13
L2
01H7 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSASGIPGQRVTISC





SGSSSNIGSNYVYWYQQLPGAAPKLLIFRSNQRPSGVPDRFSGS





KSGTSASLAISGLRSEDEADYYCAAWDDSLSGWVFGGGTKLTVL





GQPKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKA





DGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ





VTHEGSTVEKTVAPTECS


 


14
L3
02E7 LC
MDMRVPAQLLGLLLLWLRGARCDIQMTQSPSSLSASVGDRVTIT





CRASOGIRNDLGWFQQKPGKAPKRLIYAASSLQSGVPSRFSGSG





SGTEFTLTISSLQPEDLATYYCLQYNIYPWTFGQGTKVEIKRTV





AAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNAL





QSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTH





QGLSSPVTKSFNRGEC


 


15
L4
03B6 LC
MDMRVPAQLLGLLLLWLRGARCSSELTQDPTVSVALGQTVKITC





QGDSLRSFYASWYQQKPGQAPVLVFYGKNNRPSGIPDRFSGSSS





GNTASLTITGAQAEDEADYYCNSRDSSVYHLVLGGGTKLTVLGQ





PKANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADG





SPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVT





HEGSTVEKTVAPTECS


 


16
L5
03C8 LC
MDMRVPAQLLGLLLLWLRGARCDIILAQTPLSLSVTPGQPASISC





KSSQSLLHSAGKTYLYWYLQKPGQPPQLLIYEVSNRFSGVPDRFS





GSGSGTDFTLKISRVEAEDVGIYYCMQSFPLPLTFGGGIKVEIKR





TVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNA





LQSGNSQESVTEQDSKDSIYSLSSTLTLSKADYEKHKVYACEVTH





QGLSSPVTKSFNRGEC


 


17
L6
04E4 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSVSAAPGQKVTISCS





GSSSNIGNNYVSWYQQLPGTAPKLLIYDNNKRPSGIPDRFSGSKS





GTSTTLGITGLQTGDEADYYCGTWDSRLSAVVFGGGTKLTVLGQP





KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSP





VKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEG





STVEKTVAPTECS


 


18
L7
04H6 LC
MDMRVPAQLLGLLLLWLRGARCDIVMTQSPLSLPVTPGEPASISC





RSSQSLLHSFGYNYLDWYLQKPGQSPQLLIYLGSNRASGVPDRFS





GSGSGTDFTLKISRVEAEDVGVYYCMQALQTPFTFGPGTKVDIKR





TVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNA





LQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTH





QGLSSPVTKSFNRGEC


 


19
L8
05F5 LC
MDMRVPAQLLGLLLLWLRGARCDIILTQTPLSLSVTPGQPASISC





KSSQSLLHSDGKTYLYWYLQKPGQPPQLLIYEVSNRFSGEPDRFS





GSGSGTDFTLKISRVEAEDVGTYYCMQSFPLPLTFGGGTKVEIKR





TVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNA





LQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTH





QGLSSPVTKSFNRGEC


 


20
L9
09D4 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSVSAAPGQKVTISCS





GSSSNIGNNYVSWYQQFPGTAPKLLIYDNNKRPSGIPDRFSGSKS





GTSATLGITGLQTGDEADYYCGTWDSRLSAVVFGGGTKLTVLGQP





KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSP





VKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEG





STVEKTVAPTECS


 


21
L10
09F5 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQSPSASGTPGQRVTISCS





GSSSNIGSNYVYWYQQLPGAAPKLLILRNNQRPSGVPDRFSGSKS





GTSASLTISGLRSEDEADYYCAAWDDSLSGWVFGGGTKLTVLGQP





KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSP





VKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEG





STVEKTVAPTECS


 


22
L11
10E4 LC
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSASGTPGQRVTISCS





GSSSNIGSNTVNWYQQLPGTAPKLLIYTNNQRPSGVPDRFSGSKS





GTSASLAISGLQSEDEADFYCAARDESLNGVVFGGGTKLTVLGQP





KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSP





VKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEG





STVEKTVAPTECS


 


23
L12
11D11 HL
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSASGIPGQRVTISCS




11H9 LC
GSSSNIGSNYVYWYQQLPGAAPKLLIFRNNQRPSGVPDRFSGSKS





GTSASLAISGLRSEDEADYYCAAWDDSLSGWVFGGGIKLTVLGQP





KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSP





VKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEG





STVEKTVAPTECS


 


24
L13
12E8 LC
MDMRVPAQLLGLLLLWLRGARCDITLTQTPLSLSVSPGQPASISC





KSSQSLLHSDGRNYLYWYLQKPGQPPQLLIYEVSNRFSGLPDRFS





GSGSGTDFTLKISRVEAEDVGIYYCMQSFPLPLTFGGGTKVEIKR





TVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNA





LQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTH





QGLSSPVTKSFNRGEC


 


25
L14
12G8 HL
MDMRVPAQLLGLLLLWLRGARCQSVLTQPPSVSAAPGQKVTISCS





GSSSNIGNNYVSWYQQLPGTAPKLLIYDNNKRPSGIPDRFSGSKS





GTSATLGITGLQTGDEADYYCGTWDSRLSAWFGGGTKLTVLGQPK





ANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPV





KAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGS





TVEKTVAPTECS


 


26
L15
13H2 LC
MDMRVPAQLLGLLLLWLRGARCDIQMTQSPSSLSASVGDRVTITC





RASQGIRKDLGWYQQKPGKAPKRLIYGASSLQSGVPSRFSGSGSG





TEFTLTISSLQPEDFATYYCLQYNSFPWTFGQGTKVEIKRTVAAP





SVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGN





SQESVTEQDSKDSIYSLSSTLTLSKADYEKHKVYACEVTHQGLSS





PVIKSFNRGEC


 


27
L16
32H7 LC
METPAQLLFLLLLWLPDTTGEIVLTQSPGTLSLSPGERATLSCRA





SQSVSSGYLTWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGT





DFTLTISRLEPEDFAVYYCQQYGNSLCRFGQGTKLEIKRTVAAPS





VFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNS





QESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSP





VTKSFNRGEC


 


28
L17
32H7 CS LC
METPAQLLFLLLLWLPDTTGEIVLTQSPGTLSLSPGERATLSCRA





SQSVSSGYLTWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGT





DFTLTISRLEPEDFAVYYCQQYGNSLSRFGQGTKLEIKRTVAAPS





VFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNS





QESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSP





VTKSFNRGEC
















TABLE 2B







Exemplary Antibody Heavy Chain Amino Acid Sequences











SEQ ID

Contained




NO:
Designation
in Clone
Sequence














29
H1
01E11 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVESGGGVVQPGRSLRLS





04E4 HC
CAASGFTFSSFGMHWVRQAPGKGLEWVAVISFDGSIKYSVDSV




09D4 HC
KGRFTISRDNSKNTLFLQMNSLRAEDTAVYYCARDRLNYYDSS





GYYHYKYYGMAVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSE





STAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY





SLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVEC





PPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED





PEVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDW





LNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSRE





EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLD





SDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLS





LSPGK


 


30
H2
01H7 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGGSLRLS





CAASGFTFSNAWMSWVRQAPGKGLEWVGRIKSTTDGGTTDYAA





PVKGRFTISRDDSKNTLYLQMNSLKTEDTAVYYCTTDRTGYSS





WSSYYYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSE





STAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY





SLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVEC





PPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED





PEVQFNWYVDGVEVHNAKTKPREEQFNSIFRWSVLTVVHQDWL





NGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSREE





MTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDS





DGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSL





SPGK


 


31
H3
02E7 HC
MDMRVPAQLLGLLLLWLRGARCEVQLLESGGGLVQPGESLRLS





CAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGRTYYADSV





KGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCAKDQREVGPYS





SGWYDYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSE





STAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY





SLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVEC





PPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED





PEVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDW





LNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSRE





EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLD





SDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLS





LSPGK


 


32
H4
03B6 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVQSGAEVKKPGASVKVS





CKASGYTFTGYYMHWVRQAPGQGLEWMGWINPNSGGTNYAQKF





QGRVTMTRDTSISTAYMELSRLRSDDTAVYFCARDQMSIIMLR





GVFPPYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSE





STAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY





SLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVEC





PPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED





PEVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDW





LNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSRE





EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLD





SDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLS





LSPGK


 


33
H5
03C8 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVESGGGWQPGRSLRLSC




05F5 HC
CAASGFTFSSYGMHWVRQAPGKGLEWVAVISYDGSHESYADSV




12E8 HC
KGRFTISRDISKNTLYLQMNSLRAEDTAVYFCARERKRVTMST





LYYYFYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSES





TAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYS





LSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVECP





PCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDP





EVQFNWYVDGVEVHNAKTKPREEQFNSIFRWSVLTVVHQDWLN





GKEYKCKVSNKGLPAPTEKTISKTKGQPREPQVYTLPPSREEM





TKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDSD





GSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS





PGK


 


34
H6
04H6 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGRSLRLS





CTASGFTFGDYAMSWFRQAPGKGLEWIGFIRSRAYGGIPEYAA





SVKGRFTISRDDSKTIAYLQMNSLKTEDTAVYFCARGRGIAAR





WDYWGQGTLVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLV





KDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVP





SSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVECPPCPAPPVA





GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVQFNWYV





DGVEVHNAKTKPREEQFNSIFRVVSVLTVVHQDWLNGKEYKCK





VSNKGLPAPIEKTISKTKGQPREPQVYTLPPSREEMTKNQVSL





TCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDSDGSFFLYS





KLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK


 


35
H7
09F5 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGGSLRLS





CAASGFTFSNAWMSWVRQAPGKGLEWVGRIKSKTDGGTTDYTA





PVKGRFTISRDDSKNTLYLQMNSLKAEDTAVYYCTTDRTGYSS





WSSYYYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSE





STAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY





SLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVEC





PPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHED





PEVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDW





LNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSRE





EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLD





SDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLS





LSPGK


 


36
H8
10E4 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVQSGAEVKKPGASVKVS





CKASGYTFTDYYMYWVRQAPGQGLEWMGWISPNSGGTNYAQKF





QGRVTMTRDTSISTAYMELSRLRSDDTAVYYCVRGGYSGYAGL





YSHYYGMDVWGQGTTVTVSSASIKGPSVFPLAPCSRSTSESTA





ALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLS





SVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVECPPC





PAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEV





QFNWYVDGVEVHNAKTKPREEQFNSIFRWSVLTVVHQDWLNGK





EYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSREEMTK





NQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDSDGS





FFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPG





K


 


37
H9
11D11 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGGSLRLS





CAASGFTFGNAWMSWVRQAPGKGLEWVGRIKSKTDGGTTDYAA





PVKGRFTISRDDSKNTLYLQMNSLKIEDTAVYFCTTDRIGYSI





SWSSYYYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTS





ESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGL





YSLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVE





CPPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHE





DPEVQFNWYVDGVEVHNAKIKPREEQFNSIFRWSVLIWHQDWL





NGKEYKCKVSNKGLPAPIEKYISKIKGQPREPQVYYLPPSREE





MKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDSD





GSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS





PGK


 


38
H10
11H9 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGGSLRLS





CAASGFTFGNAWMSWVRQAPGKGLEWVGRIKSKTDGGTTDYAA





PVKGRFTISRDDSKNTLYLQMNSLKTEDTAVYYCTTDRTGYSI





SWSSYYYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTS





ESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGL





YSLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVE





CPPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHE





DPEVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQD





WLNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSR





EEMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPML





DSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSL





SLSPGK


 


39
H11
12G8 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVESGGGWQPGRSLRLSC





AASGFTFSSFGMHWVRQAPGKGLEWVAVISFDGSIKYSVDSVK





GRFTISRDNSKNTLFLQMNSLRAEDTAVYYCARDRLNYYDSSG





YYHYKYYGLAVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSES





TAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYS





LSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVECP





PCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDP





EVQFNWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDWL





NGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSREE





MTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDS





DGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSL





SPGK


 


40
H12
13H2 HC
MDMRVPAQLLGLLLLWLRGARCEVQLVESGGGLVKPGGSLRLS





CAASGYTFSTYSMNWVRQAPGKGLEWVSSISSSSSYRYYADSV





KGRFTISRDNAKNSLYLQMSSLRAEDTAVYYCAREGVSGSSPY





SISWYDYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTS





ESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGL





YSLSSVVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVE





CPPCPAPPVAGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHE





DPEVQFNWYVDGVEVHNAKTKPREEQFNSTFRWSVLTVVHQDW





LNGKEYKCKVSNKGLPAPIEKTISKTKGQPREPQVYTLPPSRE





EMTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLD





SDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLS





LSPGK


 


41
H13
32H7 HC
MDMRVPAQLLGLLLLWLRGARCQVQLVESGGGVVQPGRSLRLS





CAASGFTFSSYGMHWVRQAPGKGLEWVAVIWYDGSNKYYADSV





KGRFIISRDKSKNTLYLQMNSLRAEDTAVYYCARAGGIAAAGL





YYYYGMDVWGQGTTVTVSSASTKGPSVFPLAPCSRSTSESTAA





LGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSS





VVTVPSSNFGTQTYTCNVDHKPSNTKVDKTVERKCCVECPPCP





APPVAGPSVFLFPPKPKDTLMISRTPEVTCVWDVSHEDPEVQF





NWYVDGVEVHNAKTKPREEQFNSTFRVVSVLTVVHQDWLNGKE





YKCKVSNKGLPAPIEKTISKIKGQPREPQVYTLPPSREEMTKN





QVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPMLDSDGSF





FLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTIQKSLSLSPG





K









The first 22 amino acids of each of the light chain sequences in Table 2A, except 32H7 and 32H7CS, is a signal sequence. In the case of 32H7 and 32H7CS, the signal sequence is 20 amino acids. Similarly, the first 22 amino acids of each of the heavy chain sequences in Table 2B is a signal sequence. The signal peptides may be changed to signal peptides having different sequences, e.g., for more optimal expression in certain host cells. It will be therefore be understood that the invention also includes antibodies having the light and/or heavy chain sequences as specified in Tables 2A and 2B, but with different signal sequences.
Again, each of the exemplary heavy chains (H1, H2, H3 etc.) listed in Table 2B can be combined with any of the exemplary light chains shown in Table 2A to form an antibody. Examples of such combinations include H1 combined with any of L1 through L17; H2 combined with any of L1 through L17; H3 combined with any of L1 through L17, and so on. In some instances, the antibodies include at least one heavy chain and one light chain from those listed in Tables 2A and 2B. In some instances, the antibodies comprise two different heavy chains and two different light chains listed in Tables 2A and 2B. In other instances, the antibodies contain two identical light chains and two identical heavy chains. As an example, an antibody or immunologically functional fragment may include two H1 heavy chains and two L1 light chains, or two H2 heavy chains and two L2 light chains, or two H3 heavy chains and two L3 light chains and other similar combinations of pairs of light chains and pairs of heavy chains as listed in Tables 2A and 2B.
Other antigen binding proteins that are provided are variants of antibodies formed by combination of the heavy and light chains shown in Tables 2A and 2B and comprise light and/or heavy chains that each have at least 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% identity to the amino acid sequences of these chains. In some instances, such antibodies include at least one heavy chain and one light chain, whereas in other instances the variant forms contain two identical light chains and two identical heavy chains.
Variable Domains of Antibodies
Also provided are antigen binding proteins that contain an antibody heavy chain variable region selected from the group consisting of VH1, VH2, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, and VH13, and/or an antibody light chain variable region selected from the group consisting of VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, and VL17, as shown in Table 3 below, and immunologically functional fragments, derivatives, muteins and variants of these light chain and heavy chain variable regions.
Sequence alignments of the various heavy and light chain variable regions, respectively, are provided in FIGS. 1A and 1B.
Antigen binding proteins of this type can generally be designated by the formula “VHx/VLy,” where “x” corresponds to the number of heavy chain variable regions and “y” corresponds to the number of the light chain variable regions.







TABLE 3







Exemplary VH and VL Chain Amino Acid Sequences











Contained

SEQ ID




in Clone
Designation
NO.
Amino Acid Sequence














1E11
VL1
137
QSVLTQPPSVSEAPGQKVTISCSGSSSNIGNNYVSWYQQLP






GTAPKLLIYDNNKRPSGIPDRFSGSKSGTSATLGITGLQTG





DEADYYCGTWDSRLSAWFGGGTKLTVL


 


1H7
VL2
138
QSVLTQPPSASGTPGQRVTISCSGSSSNIGSNYVYWYQQLP





GAAPKLLIFRSNQRPSGVPDRFSGSKSGTSASLAISGLRSE





DEADYYCAAWDDSLSGWVFGGGTKLTVL


 


2E7
VL3
139
DIQMTQSPSSLSASVGDRVTITCRASQGIRNDLGWFQQKPG





KAPKRLIYAASSLQSGVPSRFSGSGSGTEFTLTISSLQPED





GLTYYCLQYNIYPWTFGQGTKVEIK


 


3B6
VL4
140
SSELTQDPTVSVALGQTVKITCQGDSLRSFYASWYQQKPGQ





APVLVFYGKNNRPSGIPDRFSGSSSGNTASLTITGAQAEDE





ADYYCNSRDSSVYHLVLGGGTKLTVL


 


3C8
VL5
141
DIILAQTPLSLSVTPGQPASISCKSSQSLLHSAGKTYLYWY





LQKPGQPPQLLIYEVSNRFSGVPDRFSGSGSGTDFTLKISR





VEAEDVGIYYCMQSFPLPLTFGGGTKVEIK


 


4E4
VL6
142
QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVSWYQQLP





GTAPKLLIYDNNKRPSGIPDRFSGSKSGTSTTLGITGLQTG





DEADYYCGTWDSRLSAVVFGGGTKLTVL


 


4H6
VL7
143
DIVMTQSPLSLPVTPGEPASISCRSSQSLLHSFGYNYLDWY





LQKPGQSPQLLIYLGSNRASGVPDRFSGSGSGTDFTLKISR





VEAEDVGVYYCMQALQTPFTFGPGTKVDIK


 


5F5
VL8
144
DIILTQTPLSLSVTPGQPASISCKSSQSLLHSDGKTYLYWY





LQKPGQPPQLLIYEVSNRFSGEPDRFSGSGSGTDFTLKISR





VEAEDVGTYYCMQSFPLPLTFGGGTKVEIK


 


9D4
VL9
145
QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVSWYQQFP





GTAPKLLIYDNNKRPSGIPDRFSGSKSGTSATLGITGLQIG





DEADYYCGTWDSRLSAVVFGGGTKLTVL


 


9F5
VL10
146
QSVLTQSPSASGTPGQRVTISCSGSSSNIGSNYVYWYQQLP





GAAPKLLILRNNQRPSGVPDRFSGSKSGTSASLTISGLRSE





DEADYYCAAWDDSLSGWVFGGGTKLTVL


 


10E4
VL11
147
QSVLTQPPSASGTPGQRVTISCSGSSSNIGSNTVNWYQQLP





GTAPKLLIYTNNQRPSGVPDRFSGSKSGTSASLAISGLQSE





DEADFYCAARDESLNGVVFGGGTKLTVL


 


11D11
VL12
148
QSVLTQPPSASGTPGQRVTISCSGSSSNIGSNYVYWYQQLP


11H9


GAAPKLLIFRNNQRPSGVPDRFSGSKSGTSASLAISGLRSE





DEADYYCAAWDDSLSGWVFGGGTKLTVL


 


12E8
VL13
149
DITLTQTPLSLSVSPGQPASISCKSSQSLLHSDGRNYLYWY





LQKPGQPPQLLIYEVSNRFSGLPDRFSGSGSGTDFTLKISR





VEAEDVGIYYCMQSFPLPLTFGGGIKVEIK


 


12G8
VL14
150
QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVSWYQQLP





GTAPKLLIYDNNKRPSGIPDRFSGSKSGTSATLGITGLQTG





DEADYYCGTWDSRLSAVVFGGGTKLTVL


 


13H2
VL15
151
DIQMTQSPSSLSASVGDRVTITCRASQGIRKDLGWYQQKPG





KAPKRLIYGASSLQSGVPSRFSGSGSGTEFTLTISSLQPED





FATYYCLQYNSFPWTFGQGTKVEIK


 


32H7
VL16
152
EIVLTQSPGTLSLSPGERATLSCRASQSVSSGYLTWYQQKP





GQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPE





DFAVYYCQQYGNSLCRFGQGTKLEIK


 


32H7 CS
VL17
153
EIVLTQSPGTLSLSPGERATLSCRASQSVSSGYLTWYQQKP





GQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPE





DFAVYYCQQYGNSLSRFGQGTKLEIK


 


32H8
VL18
154
DIVMTQSPDSLAVSLGERATINCKSSQSILDSSNNDNYLAW





YQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTIS





SLQAEDVAVYYCQQYYNTPFTFGPGTKVDIK


 


33B5
VL19
155
DIQMTQSPSSLSASVGDRVTITCRASQGIRNDLGWYQQKPG





KAPKRLIYVASSLQSGVPSRFSGSGSGTEFTLTISSLQPED





FATYYCLQYNTYPLTFGGGTKVEIK


 


33E4
VL20
156
EIVMTQSPATLSVSPGERATLSCRASQSVRSNLAWYQQKPG





QAPRLLIHDASPRIAGIPARFSGSGSGTEFTLTINSLQSED





FAVYYCQQYNYWTPITFGQGTRLEIK


 


34E3
VL21
157
QSVLTQPPSMSAAPGQKVTISCSGSSSNIGNNYVSWYQQLP





GTAPKLLIYDNNKRPSGIPDRFSGSKSGTSATLGITGLQTG





DEANYCCGTWDIGLSVWVFGGGTKLTVL


 


4E4
VH1
158
QVQLVESGGGVVQPGRSLRLSCAASGFTFSSFGMHWVRQAP


9D4


GKGLEWVAVISFDGSIKYSVDSVKGRFTISRDNSKNTLFLQ


1E11


MNSLRAEDTAVYYCARDRLNYYDSSGYYHYKYYGMAVWGQG





TTVTVSS


 


1H7
VH2
159
EVQLVESGGGLVKPGGSLRLSCAASGFTFSNAWMSWVRQAP





GKGLEWVGRIKSTTDGGTTDYAAPVKGRFTISRDDSKNTLY





LQMNSLKTEDTAVYYCTTDRTGYSISWSSYYYYYGMDVWGQ





GTTVTVSS


 


2E7
VH3
160
EVQLLESGGGLVQPGESLRLSCAASGFTFSSYAMSWVRQAP





GKGLEWVSAISGSGGRTYYADSVKGRFTISRDNSKNTLYLQ





MNSLRAEDTAVYYCAKDQREVGPYSSGWYDYYYGMDVWGQG





TTVTVSS


 


3B6
VH4
161
QVQLVQSGAEVKKPGASVKVSCKASGYTFTGYYMHWVRQAP





GQGLEWMGWINPNSGGTNYAQKFQGRVTMTRDTSISTAYME





LSRLRSDDTAVYFCARDQMSIIMLRGVFPPYYYGMDVWGQG





TTVTVSS


 


3C8
VH5
162
QVQLVESGGGVVQPGRSLRLSCAASGFTFSSYGMHWVRQAP


12E8


GKGLEWVAVISYDGSHESYADSVKGRFTISRDISKNTLYLQ


5F5


MNSLRAEDTAVYFCARERKRVTMSTLYYYFYYGMDVWGQGT





TVTVSS


 


4H6
VH6
163
EVQLVESGGGLVKPGRSLRLSCTASGFTFGDYAMSWFRQAP





GKGLEWIGFIRSRAYGGTPEYAASVKGRFTISRDDSKTIAY





LQMNSLKTEDTAVYFCARGRGIAARWDYWGQGTLVTVSS


 


9F5
VH7
164
EVQLVESGGGLVKPGGSLRLSCAASGFTFSNAWMSWVRQAP





GKGLEWVGRIKSKTDGGTTDYTAPVKGRFTISRDDSKNTLY





LQMNSLKAEDTAVYYCTTDRTGYSISWSSYYYYYGMDVWGQ





GTTVTVSS


 


10E4
VH8
165
QVQLVQSGAEVKKPGASVKVSCKASGYTFTDYYMYWVRQAP





GQGLEWMGWISPNSGGTNYAQKFQGRVTMTRDTSSTAYMEL





SRLRSDDTAVYYCVRGGYSGYAGLYSHYYGMDVWGQGTTVT





VSS


 


11D11
VH9
166
EVQLVESGGGLVKPGGSLRLSCAASGFTFGNAWMSWVRQAP





GKGLEWVGRIKSKTDGGTTDYAAPVKGRFTISRDDSKNTLY





LQMNSLKTEDTAVYFCTTDRTGYSISWSSYYYYYGMDVWGQ





GTTVTVSS


 


11H9
VH10
167
EVQLVESGGGLVKPGGSLRLSCAASGFTFGNAWMSWVRQAP





GKGLEWVGRIKSKTDGGTTDYAAPVKGRFTISRDDSKNTLY





LQMNSLKTEDTAVYYCTTDRTGYSISWSSYYYYYGMDVWGQ





GTTVTVSS


 


12G8
VH11
168
QVQLVESGGGVVQPGRSLRLSCAASGFTFSSFGMHWVRQAP





GKGLEWVAVISFDGSIKYSVDSVKGRFTISRDNSKNTLFLQ





MNSLRAEDTAVYYCARDRLNYYDSSGYYHYKYYGLAVWGQG





TTVTVSS


 


13H2
VH12
169
EVQLVESGGGLVKPGGSLRLSCAASGYTFSTYSMNWVRQAP





GKGLEWVSSISSSSSYRYYADSVKGRFTISRDNAKNSLYLQ





MSSLRAEDTAVYYCAREGVSGSSPYSISWYDYYYGMDVWGQ





GTTVTVSS


 


32H7
VH13
170
QVQLVESGGGGGQPGRSLRLSCAASGFTFSSYGMHWVRQAP





GKGLEWVAVIWYDGSNKYYADSVKGRFIISRDKSKNGLYLQ





MNSLRAEDTAVYYCARAGGIAAAGLYYYYGMDVWGQGTTVT





VSS


 


32H8
VH14
171
QVQLVQSGAEVKKPGASVKVSCKASGYTFTAYYLHWVRQAP





GQGLEWMGWINPHSGGTNYAQKFQGRVTMTRDTSISTAYME





LSRLRSDDTAVFYCARGRQWLGFDYWGQGTLVTVSS


 


33E4
VH15
172
QVQLQQWGAGLLKPSETLSLSCAVYGGSFGGYYWSWIRQPP





GKGLEWIGEINHSGGTKYNPSLKSRVTISVDTSKNQFSLKL





SSVTAADTAVYFCARGDVVGFFDYWGQGTLVTVSS


 


33B5
VH16
173
QVQLVQSGAEVKKSGASVKVSCKASGYTFTGYYMHWVRQAP





GQGLEWMGWINPNSGGTNYVQKFQGRVTMTRDTSISTAYME





LSRLRSDDTAVYYCARNEYSSAWPLGYWGQGTLVTVSS


 


34E3
VH17
174
QITLKESGPTLVKPTQTLTLTCTFSGFSLSTSGVGVAWTRQ





PPGKALEWLALIYWTDDKRYSPSLKSRLTITKDTSKNQWLR





MTNMDPLDTATYFCAHRPGGWFDPWGQGTLVTVSS









Each of the heavy chain variable regions listed in Table 3 may be combined with any of the light chain variable regions shown in Table 3 to form an antigen binding protein. Examples of such combinations include VH1 combined with any of VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17; VH2 combined with any of VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17; VH3 combined with any of VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17; and so on.
In some instances, the antigen binding protein includes at least one heavy chain variable region and/or one light chain variable region from those listed in Table 3. In some instances, the antigen binding protein includes at least two different heavy chain variable regions and/or light chain variable regions from those listed in Table 3. An example of such an antigen binding protein comprises (a) one VH1, and (b) one of VH2, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, or VH13. Another example comprises (a) one VH2, and (b) one of VH1, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, or VH13. Again another example comprises (a) one VH3, and (b) one of VH1, VH2, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, or VH13, etc. Again another example of such an antigen binding protein comprises (a) one VL1, and (b) one of VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17, VL18, VL19, VL20, or VL21. Again another example of such an antigen binding protein comprises (a) one VL2, and (b) one of VL1, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, VL17, VL18, VL19, VL20, or VL21. Again another example of such an antigen binding protein comprises (a) one VL3, and (b) one of VL1, VL2, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, VL17, VL18, VL19, VL20, or VL21, etc.
The various combinations of heavy chain variable regions may be combined with any of the various combinations of light chain variable regions as is apparent to one of skill in the art.
In other instances, the antigen binding protein contains two identical light chain variable regions and/or two identical heavy chain variable regions. As an example, the antigen binding protein may be an antibody or immunologically functional fragment that includes two light chain variable regions and two heavy chain variable regions in combinations of pairs of light chain variable regions and pairs of heavy chain variable regions as listed in Table 3.
Some antigen binding proteins that are provided comprise a heavy chain variable domain comprising a sequence of amino acids that differs from the sequence of a heavy chain variable domain selected from VH1, VH2, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, and VH13 at only 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 or 15 amino acid residues, wherein each such sequence difference is independently either a deletion, insertion or substitution of one amino acid, with the deletions, insertions and/or substitutions resulting in no more than 15 amino acid changes relative to the foregoing variable domain sequences. The heavy chain variable region in some antigen binding proteins comprises a sequence of amino acids that has at least 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% sequence identity to the amino acid sequences of the heavy chain variable region of VH1, VH2, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, and VH13.
Certain antigen binding proteins comprise a light chain variable domain comprising a sequence of amino acids that differs from the sequence of a light chain variable domain selected from VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17 at only 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14 or 15 amino acid residues, wherein each such sequence difference is independently either a deletion, insertion or substitution of one amino acid, with the deletions, insertions and/or substitutions resulting in no more than 15 amino acid changes relative to the foregoing variable domain sequences. The light chain variable region in some antigen binding proteins comprises a sequence of amino acids that has at least 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% sequence identity to the amino acid sequences of the light chain variable region of VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, or VL17.
In additional instances, antigen binding proteins comprise the following pairings of light chain and heavy chain variable domains: VL1 with VH1, VL2 with VH2, VL3 with VH3, VL4 with VH4, VL5 with VH5, VL6 with VH1, VL7 with VH6, VL8 with VH5, VL9 with VH1, VL10 with VH7, VL11 with, H8, VL12 with VH9, VL12 with VH10, VL13 with VH5, VL14 with VH11, VL15 with VH12, VL16 with VH13, and VL17 with VH13. In some instances, the antigen binding proteins in the above pairings may comprise amino acid sequences that have 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% sequence identity with the specified variable domains.
Still other antigen binding proteins, e.g., antibodies or immunologically functional fragments, include variant forms of a variant heavy chain and a variant light chain as just described.
CDRs
The antigen binding proteins disclosed herein are polypeptides into which one or more CDRs are grafted, inserted and/or joined. An antigen binding protein can have 1, 2, 3, 4, 5 or 6 CDRs. An antigen binding protein thus can have, for example, one heavy chain CDR1 (“CDRH1”), and/or one heavy chain CDR2 (“CDRH2”), and/or one heavy chain CDR3 (“CDRH3”), and/or one light chain CDR1 (“CDRL1”), and/or one light chain CDR2 (“CDRL2”), and/or one light chain CDR3 (“CDRL3”). Some antigen binding proteins include both a CDRH3 and a CDRL3. Specific heavy and light chain CDRs are identified in Tables 4A and 4B, respectively.
Complementarity determining regions (CDRs) and framework regions (FR) of a given antibody may be identified using the system described by Kabat et al. in Sequences of Proteins of Immunological Interest, 5th Ed., US Dept. of Health and Human Services, PHS, NIH, NIH Publication no. 91-3242, 1991. Certain antibodies that are disclosed herein comprise one or more amino acid sequences that are identical or have substantial sequence identity to the amino acid sequences of one or more of the CDRs presented in Table 4A (CDRHs) and Table 4B (CDRLs).







TABLE 4A







Exemplary Heavy Chain CDR Amino Acid Sequences













SEQ ID
Contained in





Alt Num
NO:
Reference
Designation
Sequence















42
73
1E11HCDR1
CDRH 1-1
SFGMH





4E4HCDR1




9D4HCDR1




12G8HCDR1


 


43
76
1H7HCDR1
CDRH 1-2
NAWMS




9F5HCDR1




11D11HCDR1




11H9HCDR1


 


44
79
2E7HCDR1
CDRH 1-3
SYAMS


 


45
82
3B6HCDR1
CDRH 1-4
GYYMH


 


46
85
3C8HCDR1
CDRH 1-5
SYGMH




5F5HCDR1




12E8HCDR1


 


47
88
4H6HCDR1
CDRH 1-6
DYAMS


 


48
92
10E4HCDR1
CDRH 1-7
DYYMY


 


49
97
13H2HCDR1
CDRH 1-8
TYSMN


 


50
100
32H7HCDR1
CDRH 1-9
SYGMH


 


51
74
1E11HCDR2
CDRH 2-1
VISFDGSIKYSVDSVKG




4E4HCDR2




9D4HCDR2




12G8HCDR2


 


52
77
1H7HCDR2
CDRH 2-2
RIKSTTDGGTTDYAAPVKG


 


53
80
2E7HCDR2
CDRH 2-3
AISGSGGRTYYADSVKG


 


54
83
3B6HCDR2
CDRH 2-4
WINPNSGGTNYAQKFQG


 


55
86
3C8HCDR2
CDRH 2-5
VISYDGSHESYADSVKG




5F5HCDR2




12E8HCDR2


 


56
89
4H6HCDR2
CDRH 2-6
FIRSRAYGGIPEYAASVKG


 


57
91
9F5HCDR2
CDRH 2-7
RIKSKIDGGIIDYIAPVKG


 


58
93
10E4HCDR2
CDRH 2-8
WISPNSGGINYAQKFQG


 


59
95
11D11HCDR2
CDRH 2-9
RIKSKTDGGTTDYAAPVKG




11H9HCDR2


 


60
98
13H2HCDR2
CDRH 2-10
SISSSSSYRYYADSVKG


 


61
101
32H7HCDR2
CDRH 2-11
VIWYDGSNKYYADSVKG


 


62
75
1E11HCDR3
CDRH 3-1
DRLNYYDSSGYYHYKYYGMAV




4E4HCDR3




9D4HCDR3


 


63
78
1H7HCDR3
CDRH 3-2
DRTGYSISWSSYYYYYGMDV




9F5HCDR3




11D11HCDR3




11H9HCDR3


 


64
81
2E7HCDR3
CDRH 3-3
DQREVGPYSSGWYDYYYGMDV


 


65
84
3B6HCDR3
CDRH 3-4
DQMSIIMLRGVFPPYYYGMDV


 


66
87
3C8HCDR3
CDRH 3-5
ERKRVTMSTLYYYFYYGMDV




5F5HCDR3




12E8HCDR3


 


67
90
4H6HCDR3
CDRH 3-6
GRGIAARWDY


 


68
94
10E4HCDR3
CDRH3-7
GGYSGYAGLYSHYYGMDV


 


69
96
12G8HCDR3
CDRH 3-8
DRLNYYDSSGYYHYKYYGLAV


 


70
99
13H2HCDR3
CDRH 3-9
EGVSGSSPYSISWYDYYYGMDV


 


71
102
32H7HCDR3
CDRH 3-10
AGGIAAAGLYYYYGMDV
















TABLE 4B







Exemplary Light Chain CDR Amino Acid Sequences













SEQ ID






Alt Num
NO:
Contained in Reference
Designation
Sequence















72
42
1E11LCD1
CDRL 1-1
SGSSSNIGNNYVS





4E4LCD1




9D4LCD1




12G8LCD1


 


73
45
1H7LCD1
CDRL 1-2
SGSSSNIGSNYVY




9F5LCD1




11D11LC1




11H9LCD1


 


74
48
2E7LCD1
CDRL 1-3
RASQGIRNDLG


 


75
51
3B6LCD1
CDRL 1-4
QGDSLRSFYAS


 


76
54
3C8LCD1
CDRL 1-5
KSSQSLLHSAGKTYLY


 


77
57
4H6LCD1
CDRL 1-6
RSSQSLLHSFGYNYLD


 


78
60
5F5LCD1
CDRL 1-7
KSSQSLLHSDGKTYLY


 


79
62
10E4LCD1
CDRL 1-8
SGSSSNIGSNTVN


 


80
65
12E8LCD1
CDRL 1-9
KSSQSLLHSDGRNYLY


 


81
66
13H2LCD1
CDRL 1-10
RASQGIRKDLG


 


82
69
32H7 LCD1
CDRL 1-11
RASQSVSSGYLT




32H7m LCD1


 


83
43
1E11LCD2
CDRL 2-1
DNNKRPS




4E4LCD2




9D4LCD2




12G8LCD2


 


84
46
1H7LCD2
CDRL 2-2
RSNQRPS


 


85
49
2E7LCD2
CDRL 2-3
AASSLQS


 


86
52
3B6LCD2
CDRL 2-4
GKNNRPS


 


87
55
3C8LCD2
CDRL 2-5
EVSNRFS




5F5LCD2




12E8LCD2


 


88
58
4H6LCD2
CDRL 2-6
LGSNRAS


 


89
61
9F5LCD2
CDRL 2-7
RNNQRPS




11D11LC2




11H9LCD2


 


90
63
10E4LCD2
CDRL 2-8
INNQRPS


 


91
67
13H2LCD2
CDRL 2-9
GASSLQS


 


92
70
32H7 LCD2
CDRL 2-10
GASSRAT




32H7m LCD2


 


93
44
1E11LCD3
CDRL 3-1
GTWDSRLSAVV




4E4LCD3




9D4LCD3




12G8LCD3


 


94
47
1H7LCD3
CDRL 3-2
AAWDDSLSGWV




9F5LCD3




11D11LC3




11H9LCD3


 


95
50
2E7LCD3
CDRL 3-3
LQYNIYPWT


 


96
53
3B6LCD3
CDRL 3-4
NSRDSSVYHLV


 


97
56
3C8LCD3
CDRL 3-5
MQSFPLPLT




5F5LCD3




12E8LCD3


 


98
59
4H6LCD3
CDRL 3-6
MQALQTPFT


 


99
64
10E4LCD3
CDRL 3-7
AARDESLNGW


 


100
68
13H2LCD3
CDRL 3-8
LQYNSFPWT


 


101
71
32H7 LCD3
CDRL 3-9
QQYGNSLCR


 


102
72
32H7m LCD3
CDRL 3-10
QQYGNSLSR









The structure and properties of CDRs within a naturally occurring antibody has been described, supra. Briefly, in a traditional antibody, the CDRs are embedded within a framework in the heavy and light chain variable region where they constitute the regions responsible for antigen binding and recognition. A variable region comprises at least three heavy or light chain CDRs, see, supra (Kabat et al., 1991, Sequences of Proteins of Immunological Interest, Public Health Service N.I.H., Bethesda, Md.; see also Chothia and Lesk, 1987, J. Mol. Biol. 196:901-917; Chothia et al., 1989, Nature 342: 877-883), within a framework region (designated framework regions 1-4, FR1, FR2, FR3, and FR4, by Kabat et al., 1991, supra; see also Chothia and Lesk, 1987, supra). The CDRs provided herein, however, may not only be used to define the antigen binding domain of a traditional antibody structure, but may be embedded in a variety of other polypeptide structures, as described herein.
In one aspect, the CDRs provided are (a) a CDRH selected from the group consisting of (i) a CDRH1 selected from the group consisting of SEQ ID NO:73, 76, 79, 82, 85, 88, 92, 97, and 100; (ii) a CDRH2 selected from the group consisting of SEQ ID NO:74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129; (iii) a CDRH3 selected from the group consisting of SEQ ID NO:75, 78, 81, 84, 87, 90, 96, 99, 102, and 123; and (iv) a CDRH of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions of no more than five, four, three, two, or one amino acids; (B) a CDRL selected from the group consisting of (i) a CDRL1 selected from the group consisting of SEQ ID NO:42, 45, 48, 51, 54, 57, 62, 65, 66, and 69; (ii) a CDRL2 selected from the group consisting of SEQ ID NO:43, 46, 49, 52, 55, 58, 61, 63, 67, and 70; (iii) a CDRL3 selected from the group consisting of SEQ ID NO:44, 47, 50, 53, 56, 59, 64, 68, 71, and 72; and (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions (e.g., conservative amino acid substitutions), deletions or insertions of no more than five, four, three, two, or one amino acids amino acids.
In another aspect, an antigen binding protein includes 1, 2, 3, 4, 5, or 6 variant forms of the CDRs listed in Tables 4A and 4B, each having at least 80%, 85%, 90% or 95% sequence identity to a CDR sequence listed in Tables 4A and 4B. Some antigen binding proteins include 1, 2, 3, 4, 5, or 6 of the CDRs listed in Tables 4A and 4B, each differing by no more than 1, 2, 3, 4 or 5 amino acids from the CDRs listed in these tables.
In yet another aspect, the CDRs disclosed herein include consensus sequences derived from groups of related monoclonal antibodies. As described herein, a “consensus sequence” refers to amino acid sequences having conserved amino acids common among a number of sequences and variable amino acids that vary within a given amino acid sequences. The CDR consensus sequences provided include CDRs corresponding to each of CDRH1, CDRH2, CDRH3, CDRL1, CDRL2 and CDRL3.
In still another aspect, an antigen binding protein includes the following associations of CDRL1, CDRL2 and CDRL3: SEQ ID NOs: 42, 43, and 44; SEQ ID NOs: 45, 46, and 47; SEQ ID NOs: 48, 49, and 50; SEQ ID NOs: 51, 52, and 53; SEQ ID NOs: 54, 55, and 56; SEQ ID NOs: 57, 58, and 59; SEQ ID NOs: 60, 55, and 56; SEQ ID NOs: 45, 61, and 47; SEQ ID NOs: 62, 63, and 64; SEQ ID NOs: 65, 55, and 56; SEQ ID NOs: 66, 67, and 68; SEQ ID NOs: 69, 70, and 71; and SEQ ID NOs: 69, 70, and 72.
In an additional aspect, an antigen binding protein includes the following associations of CDRH1, CDRH2 and CDRH3: SEQ ID NOs: 73, 74, and 75; SEQ ID NOs: 76, 77, and 78; SEQ ID NOs: 79, 80, and 81; SEQ ID NOs: 82, 83, and 84; SEQ ID NOs: 85, 86, and 87; SEQ ID NOs: 88, 89, and 90; SEQ ID NOs: 76, 91, and 78; SEQ ID NOs: 92, 93, and 94; SEQ ID NOs: 76, 95, and 78; SEQ ID NOs: 73, 74, and 96; SEQ ID NOs: 97, 98, and 99; and SEQ ID NOs: 100, 101, and 102.
In another aspect, an antigen binding protein includes the following associations of CDRL1, CDRL2 and CDRL3 with CDRH1, CDRH2 and CDRH3: SEQ ID NOs: 42, 43, and 44 with SEQ ID NOs: 73, 74, and 75; SEQ ID NOs: 45, 46, and 47 with SEQ ID NOs: 76, 77, and 78; SEQ ID NOs: 48, 49, and 50 with SEQ ID NOs: 79, 80, and 81; SEQ ID NOs: 51, 52, and 53 with SEQ ID NOs: 82, 83, and 84; SEQ ID NOs: 54, 55, and 56 with SEQ ID NOs: 85, 86, and 87; SEQ ID NOs: 57, 58, and 59 with SEQ ID NOs: 88, 89, and 90; SEQ ID NOs: 60, 55, and 56 with SEQ ID NOs: 85, 86, and 87; SEQ ID NOs: 45, 61, and 47 with SEQ ID NOs: 76, 91, and 78; SEQ ID NOs: 62, 63, and 64 with SEQ ID NOs: 92, 93, and 94; SEQ ID NOs: 45, 61, and 47 with SEQ ID NOs: 76, 95, and 78; SEQ ID NOs: 65, 55, and 56 with SEQ ID NOs: 85, 86, and 87; SEQ ID NOs: 42, 43, and 44 with SEQ ID NOs: 73, 74, and 96; SEQ ID NOs: 66, 67, and 68 with SEQ ID NOs: 97, 98, and 99; SEQ ID NOs: 69, 70, and 71 with SEQ ID NOs: 100, 101, and 102; and SEQ ID NOs: 69, 70, and 72 with SEQ ID NOs: 100, 101, and 102.
Consensus sequences were determined using standard phylogenic analyses of the CDRs corresponding to the VH and VL of anti-CGRP R antibodies. The consensus sequences were determined by keeping the CDRs contiguous within the same sequence corresponding to a VH or VL.
As illustrated in FIGS. 3A, 3B, 4, 5A, 5B, 5C, 5D and 5E, lineage analysis of a variety of the antigen binding proteins provided herein resulted in groups of related sequences, designated as light chain CDR groups K1, K2, K3, and K4 (FIGS. 3A and 3B), light chain CDR groups L1, L2, L3, and L4 (FIG. 4), and heavy chain CDR groups HC1 (FIG. 5A), HC2 (FIG. 5B), HC3 (FIG. 5C), HC4 (FIG. 5C), HC5 (FIG. 5D) and HC6 (FIG. 5E). Some of the above groups were used to generate additional consensus sequences, as illustrated in FIGS. 3A, 3B, 4, and 5F, to yield light chain CDR groups K1,4 (FIG. 3A), K2,3 (FIG. 3B), L1,2,3 (FIG. 4), and LAll (FIG. 4), and heavy chain CDR groups HCA and HCB (FIG. 5F).
The consensus sequences of the various CDR region groups are provided below:
K1 Consensus
CDR1 RASQGIRX1DLG (SEQ ID NO:103), wherein X1 is selected from the group consisting of N and K.
CDR2 X1ASSLQS (SEQ ID NO:104), wherein X1 is selected from the group consisting of A and G.
CDR3 LQYNX1X2PWT (SEQ ID NO:105), wherein X1 is selected from the group consisting of I and S, and X2 is selected from the group consisting of Y and F.
K4 Consensus
CDR3 QQYGNSLX1R (SEQ ID NO:106), wherein X1 is selected from the group consisting of S and C.
K1,4 Consensus
CDR1 RASQX1X2X3X4GX5LX6 (SEQ ID NO:107), wherein X1 is selected from the group consisting of S and G, X2 is selected from the group consisting of V and I, X3 is selected from the group consisting of S and R, X4 is selected from the group consisting of S, N and K, X5 is selected from the group consisting of Y and D, and X6 is selected from the group consisting of T and G.
CDR2 X1ASSX2X3X4 (SEQ ID NO:108), wherein X1 is selected from the group consisting of G and A, X2 is selected from the group consisting of R and L, X3 is selected from the group consisting of A and Q, and X4 is selected from the group consisting of T and S.
CDR3 X1QYX2X3X4X5X6X7 (SEQ ID NO:109), wherein X1 is selected from the group consisting of Q and L, X2 is selected from the group consisting of G and N, X3 is selected from the group consisting of N and T, X4 is selected from the group consisting of S, Y and F, X5 is selected from the group consisting of L and P, X6 is selected from the group consisting of C, W and S, and X7 is selected from the group consisting of R and T.
K3 Consensus
CDR1 KSSQSLLHSX1GX2X3YLY (SEQ ID NO:110), wherein X1 is selected from the group consisting of D and A, X2 is selected from the group consisting of R and K, and X3 is selected from the group consisting of N and T.
K2,3 Consensus
CDR1 X1SSQSLLHSX2GX3X4YLX5 (SEQ ID NO:111), wherein X1 is selected from the group consisting of R and K, X2 is selected from the group consisting of F, D and A, X3 is selected from the group consisting of Y, R and K, X4 is selected from the group consisting of N and T, and X5 is selected from the group consisting of D and Y.
CDR2 X1X2SNRX3S (SEQ ID NO:112), wherein X1 is selected from the group consisting of L and E, X2 is selected from the group consisting of G and V, and X3 is selected from the group consisting of A and F.
CDR3 MQX1X2X3X4PX5T (SEQ ID NO:113), wherein X1 is selected from the group consisting of A and S, X2 is selected from the group consisting of L and F, X3 is selected from the group consisting of Q and P, X4 is selected from the group consisting of T and L, and X5 is selected from the group consisting of F and L.
Lm3 Consensus
CDR2 RX1NQRPS (SEQ ID NO:114), wherein X1 is selected from the group consisting of N and S.
Lm1,2,3 Consensus
CDR1 SGSSSNIGX1NX2VX3 (SEQ ID NO:115), wherein X1 is selected from the group consisting of N and S, X2 is selected from the group consisting of Y and T, and X3 is selected from the group consisting of S, N and Y.
CDR2 X1X2NX3RPS (SEQ ID NO:116), wherein X1 is selected from the group consisting of D, T and R, X2 is selected from the group consisting of N and S, and X3 is selected from the group consisting of K and Q.
CDR3 X1X2X3DX4X5LX6X7VV (SEQ ID NO:117), wherein X1 is selected from the group consisting of G and A, X2 is selected from the group consisting of T and A, X3 is selected from the group consisting of W and R, X4 is selected from the group consisting of S and D, X5 is selected from the group consisting of R and S, X6 is selected from the group consisting of S and N, and X7 is selected from the group consisting of A and G.
LAll Consensus
CDR1 X1GX2X3SX4X5X6X7X8X9X10X11 (SEQ ID NO:118), wherein X1 is selected from the group consisting of S and Q, X2 is present or absent, and if present, is S, X3 is selected from the group consisting of S and D, X4 is present or absent, and if present, is N, X5 is selected from the group consisting of I and L, X6 is selected from the group consisting of G and R, X7 is selected from the group consisting of N and S, X8 is selected from the group consisting of N and F, X9 is selected from the group consisting of Y and T, X10 is selected from the group consisting of V and A, and X11 is selected from the group consisting of S, N and Y.
CDR2 X1X2NX3RPS (SEQ ID NO:119), wherein X1 is selected from the group consisting of D, G, T, and R, X2 is selected from the group consisting of N, K and S, and X3 is selected from the group consisting of K, N and Q.
CDR3 X1X2X3DX4X5X6X7X8X9V (SEQ ID NO:120), wherein X1 is selected from the group consisting of G, N and A, X2 is selected from the group consisting of T, S and A, X3 is selected from the group consisting of W and R, X4 is selected from the group consisting of S and D, X5 is selected from the group consisting of R and S, X6 is selected from the group consisting of L and V, X7 is selected from the group consisting of S, Y and N, X8 is selected from the group consisting of A, H and G, and X9 is selected from the group consisting of V and L.
HC1 Consensus
CDR1 X1YYMX2 (SEQ ID NO:121), wherein X1 is selected from the group consisting of G and D, X2 is selected from the group consisting of H and Y.
CDR2 WIX1PNSGGTNYAQKFQG (SEQ ID NO:122), wherein X1 is selected from the group consisting of N and S.
CDR3 X1X2X3SX4X5X6X7X8GX9X10X11X12YYX13GMDV (SEQ ID NO:123), wherein X1 is selected from the group consisting of D and G, X2 is selected from the group consisting of Q and G, X3 is selected from the group consisting of M and Y, X4 is selected from the group consisting of I and G, X5 is selected from the group consisting of I and Y, X6 is selected from the group consisting of M and A, X7 is present or absent, and if present, is L, X8 is present or absent, and if present, is R, X9 is selected from the group consisting of V and L, X10 is selected from the group consisting of F and Y, X11 is selected from the group consisting of P and S, X12 is selected from the group consisting of P and H, and X13 is present or absent, and if present, is Y.
HC2 Consensus
CDR2 RIKSX1TDGGTTDYX2APVKG (SEQ ID NO:124), wherein X1 is selected from the group consisting of K and T, and X2 is selected from the group consisting of T and A.
HC3 Consensus
CDR1 X1YX2MX3 (SEQ ID NO:125), wherein X1 is selected from the group consisting of T and S, X2 is selected from the group consisting of S and A, and X3 is selected from the group consisting of N and S.
CDR2 X1ISX2SX3X4X5X6YYADSVKG (SEQ ID NO:126), wherein X1 is selected from the group consisting of S and A, X2 is selected from the group consisting of S and G, X3 is selected from the group consisting of S and G, X4 is selected from the group consisting of S and G, X5 is selected from the group consisting of Y and R, and X6 is selected from the group consisting of R and T.
CDR3 X1X2X3X4X5X6X7PYSX8X9WYDYYYGMDV (SEQ ID NO:127), wherein X1 is selected from the group consisting of E and D, X2 is selected from the group consisting of G and Q, X3 is selected from the group consisting of V and R, X4 is selected from the group consisting of S and E, X5 is selected from the group consisting of G and V, X6 is selected from the group consisting of S and G, X7 is present or absent, and if present, is S, X8 is selected from the group consisting of I and S, and X9 is selected from the group consisting of S and G.
HC4 Consensus
CDR1 SX1GMH (SEQ ID NO:128), wherein X1 is selected from the group consisting of F and Y.
CDR2 VISX1DGSX2KYX3X4DSVKG (SEQ ID NO:129), wherein X1 is selected from the group consisting of F and Y, X2 is selected from the group consisting of I and H, X3 is selected from the group consisting of S and Y, and X4 is selected from the group consisting of V and A.
CDR3 X1RX2X3X4X5X6SX7X8YYX9X10X11YYGX12X13V (SEQ ID NO:130), wherein X1 is selected from the group consisting of D and E, X2 is selected from the group consisting of L and K, X3 is selected from the group consisting of N and R, X4 is selected from the group consisting of Y and V, X5 is selected from the group consisting of Y and T, X6 is selected from the group consisting of D and M, X7 is selected from the group consisting of S and T, X8 is selected from the group consisting of G and L, X9 is selected from the group consisting of H and Y, X10 is present or absent, and if present, is Y, X11 is selected from the group consisting of K and F, X12 is selected from the group consisting of M and L, and X13 is selected from the group consisting of A and D.
HCA Consensus
CDR1 X1X2X3MX4 (SEQ ID NO:131), wherein X1 is selected from the group consisting of N and S, X2 is selected from the group consisting of A, Y and F, X3 is selected from the group consisting of W, A and G, and X4 is selected from the group consisting of S and H.
CDR2 X1IX2X3X4X5X6GX7X8X9X10X11X12X13X14VKG (SEQ ID NO:132), wherein X1 is selected from the group consisting of R, A and V, X2 is selected from the group consisting of K, S and W, X3 is selected from the group consisting of S, G, F and Y, X4 is present or absent, and if present, is selected from the group consisting of K and T, X5 is present or absent, and if present, is T, X6 is selected from the group consisting of D and S, X7 is selected from the group consisting of G and S, X8 is selected from the group consisting of T, R, I, N and H, X9 is selected from the group consisting of T and K, X10 is selected from the group consisting of D and Y, X11 is selected from the group consisting of Y and S, X12 is selected from the group consisting of T, A and V, X13 is selected from the group consisting of A and D, and X14 is selected from the group consisting of P and S.
CDR3 X1X2X3X4X5X6X7X8X9X10X11X12X13X14X15X16X17GX18X19V (SEQ ID NO:133), wherein X1 is selected from the group consisting of D, A and E, X2 is selected from the group consisting of R, Q and G, X3 is selected from the group consisting of T, R, L, G and K, X4 is selected from the group consisting of G, E, N, I and R, X5 is selected from the group consisting of Y, V and A, X6 is selected from the group consisting of S, G, Y, A and T, X7 is selected from the group consisting of I, P, D, A and M, X8 is present or absent, and if present, is selected from the group consisting of S and Y, X9 is present or absent, and if present, is selected from the group consisting of W, S and T, X10 is selected from the group consisting of S, G and L, X11 is selected from the group consisting of S, G, L and Y, X12 is present or absent, and if present, is selected from the group consisting of W and Y, X13 is selected from the group consisting of Y and H, X14 is present or absent, and if present, is selected from the group consisting of Y and D, X15 is selected from the group consisting of Y, K and F, X16 is present or absent, and if present, is Y, X17 is present or absent, and if present, is Y, X18 is selected from the group consisting of M and L, and X19 is selected from the group consisting of D and A.
HCB Consensus
CDR1 X1X2X3X4X5 (SEQ ID NO:134), wherein X1 is selected from the group consisting of N, G, D, S and A, X2 is selected from the group consisting of A, F and Y, X3 is selected from the group consisting of W, Y, A and G, X4 is selected from the group consisting of M and L, and X5 is selected from the group consisting of S and H.
CDR2 X1IX2X3X4X5X6X7X8X9X10X11X12X13X14X15X16X17G (SEQ ID NO:135), wherein X1 is selected from the group consisting of R, W, A, V, S and F, X2 is selected from the group consisting of K, N, S, W and R, X3 is selected from the group consisting of S, P, G, F and Y, X4 is present or absent, and if present, is selected from the group consisting of K, T and R, X5 is present or absent, and if present, is selected from the group consisting of T and A, X6 is selected from the group consisting of D, N, H, S and Y, X7 is selected from the group consisting of G and S, X8 is selected from the group consisting of G and S, X9 is selected from the group consisting of T, G, R, I, N, H and Y, X10 is selected from the group consisting of T, K, R and P, X11 is selected from the group consisting of D, N, Y and E, X12 is selected from the group consisting of Y and S, X13 is selected from the group consisting of T, A and V, X14 is selected from the group consisting of A, Q and D, X15 is selected from the group consisting of P, K and S, X16 is selected from the group consisting of V and F, and X17 is selected from the group consisting of K and Q.
CDR3 X1X2X3X4X5SX6X7X8X9X10X11X12X13X14X15X16GX17X18V (SEQ ID NO:136), wherein X1 is selected from the group consisting of D, G, A and E, X2 is selected from the group consisting of R, G and Q, X3 is selected from the group consisting of T, M, Y, R, L, G and K, X4 is selected from the group consisting of G, S, E, N, I and R, X5 is selected from the group consisting of Y, I, G, V and A, X6 is selected from the group consisting of S, I, Y, G, A and T, X7 is selected from the group consisting of I, M, A, P and D, X8 is present or absent, and if present, is selected from the group consisting of S, L and Y, X9 is present or absent, and if present, is selected from the group consisting of W, R, S and T, X10 is selected from the group consisting of S, G and L, X11 is selected from the group consisting of S, V, L, G and Y, X12 is present or absent, and if present, is selected from the group consisting of F, Y and W, X13 is selected from the group consisting of Y, P, S and H, X14 is present or absent, and if present, is selected from the group consisting of Y, P, D and H, X15 is selected from the group consisting of Y, K and F, X16 is present or absent, and if present, is Y, X17 is present or absent, and if present, is Y, and X18 is selected from the group consisting of M and L.
In some cases the antigen binding protein comprises at least one heavy chain CDR1, CDR2, or CDR3 having one of the above consensus sequences. In some cases, the antigen binding protein comprises at least one light chain CDR1, CDR2, or CDR3 having one of the above consensus sequences. In other cases, the antigen binding protein comprises at least two heavy chain CDRs according to the above consensus sequences, and/or at least two light chain CDRs according to the above consensus sequences. In still other cases, the antigen binding protein comprises at least three heavy chain CDRs according to the above consensus sequences, and/or at least three light chain CDRs according to the above consensus sequences.
Exemplary Antigen Binding Proteins
According to one aspect, provided is an isolated antigen-binding protein that binds CGRP R comprising (A) one or more heavy chain complementary determining regions (CDRHs) selected from the group consisting of: (i) a CDRH1 selected from the group consisting of SEQ ID NO:73, 76, 79, 82, 85, 88, 92, 97, and 100; (ii) a CDRH2 selected from the group consisting of SEQ ID NO:74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129; (iii) a CDRH3 selected from the group consisting of SEQ ID NO:75, 78, 81, 84, 87, 90, 96, 99, 102, and 123; and (iv) a CDRH of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions, deletions or insertions of no more than five, four, three, four, two or one amino acids; (B) one or more light chain complementary determining regions (CDRLs) selected from the group consisting of: (i) a CDRL1 selected from the group consisting of SEQ ID NO:42, 45, 48, 51, 54, 57, 62, 65, 66, and 69; (ii) a CDRL2 selected from the group consisting of SEQ ID NO:43, 46, 49, 52, 55, 58, 61, 63, 67, and 70; (iii) a CDRL3 selected from the group consisting of SEQ ID NO:44, 47, 50, 53, 56, 59, 64, 68, 71, and 72; and (iv) a CDRL of (i), (ii) and (iii) that contains one or more, e.g., one, two, three, four or more amino acid substitutions, deletions or insertions of no more than five, four, three, four, two or one amino acids; or (C) one or more heavy chain CDRHs of (A) and one or more light chain CDRLs of (B).
In yet another embodiment, the isolated antigen-binding protein may comprise (A) a CDRH selected from the group consisting of (i) a CDRH1 selected from the group consisting of SEQ ID NO:73, 76, 79, 82, 85, 88, 92, 97, and 100; (ii) a CDRH2 selected from the group consisting of SEQ ID NO:74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129; and (iii) a CDRH3 selected from the group consisting of SEQ ID NO:75, 78, 81, 84, 87, 90, 96, 99, 102, and 123; (B) a CDRL selected from the group consisting of (i) a CDRL1 selected from the group consisting of SEQ ID NO:42, 45, 48, 51, 54, 57, 62, 65, 66, and 69; (ii) a CDRL2 selected from the group consisting of SEQ ID NO:43, 46, 49, 52, 55, 58, 61, 63, 67, and 70; and (iii) a CDRL3 selected from the group consisting of SEQ ID NO:44, 47, 50, 53, 56, 59, 64, 68, 71, and 72; or (C) one or more heavy chain CDRHs of (A) and one or more light chain CDRLs of (B). In one embodiment, the isolated antigen-binding protein may include (A) a CDRH1 of SEQ ID NO:73, 76, 79, 82, 85, 88, 92, 97, and 100, a CDRH2 of SEQ ID NO:74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129, and a CDRH3 of SEQ ID NO:75, 78, 81, 84, 87, 90, 96, 99, 102, and 123, and (B) a CDRL1 of SEQ ID NO:42, 45, 48, 51, 54, 57, 62, 65, 66, and 69, a CDRL2 of SEQ ID NO:43, 46, 49, 52, 55, 58, 61, 63, 67, and 70, and a CDRL3 of SEQ ID NO:44, 47, 50, 53, 56, 59, 64, 68, 71, and 72.
In another embodiment, the heavy chain variable region (VH) has at least 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NO:158-170, and/or the VL has at least 70%, 75%, 80%, 85%, 90%, 95%, 97% or 99% sequence identity with an amino acid sequence selected from the group consisting of SEQ ID NO:137-153. In a further embodiment, the VH is selected from the group consisting of SEQ ID NO: 158-170, and/or the VL is selected from the group consisting of SEQ ID NO: 137-153.
In another aspect, also provided is an isolated antigen binding protein that specifically binds to an epitope formed of amino acid residues from both the CRLR and RAMP1 components of the CGRP R.
In yet another embodiment, the isolated antigen binding protein described hereinabove comprises a first amino acid sequence comprising at least one of the CDRH consensus sequences disclosed herein, and a second amino acid sequence comprising at least one of the CDRL consensus sequences disclosed herein. In one aspect, the first amino acid sequence comprises at least two of the CDRH consensus sequences, and/or the second amino acid sequence comprises at least two of the CDRL consensus sequences.
In certain embodiments, the first and the second amino acid sequence are covalently bonded to each other.
In a further embodiment, the first amino acid sequence of the isolated antigen-binding protein includes the CDRH3 of SEQ ID NO:75, 78, 81, 84, 87, 90, 96, 99, 102, and 123, CDRH2 of SEQ ID NO:74, 77, 80, 83, 86, 89, 91, 93, 95, 98, 101, and 129, and CDRH1 of SEQ ID NO:73, 76, 79, 82, 85, 88, 92, 97, and 100, and/or the second amino acid sequence of the isolated antigen binding protein comprises the CDRL3 of SEQ ID NO:44, 47, 50, 53, 56, 59, 64, 68, 71, and 72, CDRL2 of SEQ ID NO:43, 46, 49, 52, 55, 58, 61, 63, 67, and 70, and CDRL1 of SEQ ID NO:42, 45, 48, 51, 54, 57, 62, 65, 66, and 69.
In a further embodiment, the antigen binding protein comprises at least two CDRH sequences of heavy chain sequences H1, H2, H3, H4, H5, H6, H7, H8, H9, H10, H11, H12, or H13, as shown in Table 5A. In again a further embodiment, the antigen binding protein comprises at least two CDRL sequences of light chain sequences L1, L2, L3, L4, L5, L6, L7, L8, L9, L10, L11, L12, L13, L14, L15, L16, or L17, as shown in Table 5B. In again a further embodiment, the antigen binding protein comprises at least two CDRH sequences of heavy chain sequences H1, H2, H3, H4, H5, H6, H7, H8, H9, H10, H11, H12, or H13, as shown in Table 5A, and at least two CDRLs of light chain sequences L1, L2, L3, L4, L5, L6, L7, L8, L9, L10, L11, L12, L13, L14, L15, L16, or L17, as shown in Table 5B.
In again another embodiment, the antigen binding protein comprises the CDRH1, CDRH2, and CDRH3 sequences of heavy chain sequences H1, H2, H3, H4, H5, H6, H7, H8, H9, H10, H11, H12, or H13, as shown in Table 5A. In yet another embodiment, the antigen binding protein comprises the CDRL1, CDRL2, and CDRL3 sequences of light chain sequences L1, L2, L3, L4, L5, L6, L7, L8, L9, L10, L11, L12, L13, L14, L15, L16, or L17, as shown in Table 5B.
In yet another embodiment, the antigen binding protein comprises all six CDRs of L1 and H1, or L2 and H2, or L3 and H3, or L4 and H4, or L5 and H5, or L6 and H1, or L7 and H6, or L8 and H5, or L9 and H1, or L10 and H7, or L11 and H8, or L12 and H9, or L12 and H10, or L13 and H5, or L14 and H11, or L15 and H12, or L16 and H13, or L17 and H13, as shown in Tables 5A and 5B.







TABLE 5A







Exemplary Heavy Chain Amino Acid Sequence Regions















Full Heavy
Full Heavy
Heavy Chain
Heavy Chain






Chain
Chain
Variable Region
Variable Region
CDRH1
CDRH2
CDRH3


Reference
Group
SEQ ID NO
Group
SEQ ID NO
SEQ ID NO
SEQ ID NO
SEQ ID NO

















1E11
H1
29
VH1
158
73
74
75


1H7
H2
30
VH2
159
76
77
78


2E7
H3
31
VH3
160
79
80
81


3B6
H4
32
VH4
161
82
83
84


3C8
H5
33
VH5
162
85
86
87


4E4
H1
29
VH1
158
73
74
75


4H6
H6
34
VH6
163
88
89
90


5F5
H5
33
VH5
162
85
86
87


9D4
H1
29
VH1
158
73
74
75


9F5
H7
35
VH7
164
76
91
78


10E4
H8
36
VH8
165
92
93
94


11D11
H9
37
VH9
166
76
95
78


11H9
H10 
38
VH10 
167
76
95
78


12E8
H5
33
VH5
162
85
86
87


12G8
H11 
39
VH11 
168
73
74
96


13H2
H12 
40
VH12 
169
97
98
99


32H7
H13 
41
VH13 
170
100
101
102


32H7 CS
H13 
41
VH13 
170
100
101
102


32H8


VH14 
171


33B5


VH15 
172


33E4


VH16 
173


34E3


VH17 
174
















TABLE 5B







Exemplary Light Chain Amino Acid Sequence Regions















Full Light
Full Light
Light Chain
Light Chain






Chain
Chain
Variable Region
Variable Region
CDRL1
CDRL2
CDRL3


Reference
Group
SEQ ID NO
Group
SEQ ID NO
SEQ ID NO
SEQ ID NO
SEQ ID NO





1E11
L1
12
 VL1
137
42
43
44


1H7
L2
13
 VL2
138
45
46
47


2E7
L3
14
 VL3
139
48
49
50


3B6
L4
15
 VL4
140
51
52
53


3C8
L5
16
 VL5
141
54
55
56


4E4
L6
17
 VL6
142
42
43
44


4H6
L7
18
 VL7
143
57
58
59


5F5
L8
19
 VL8
144
60
55
56


9D4
L9
20
 VL9
145
42
43
44


9F5
L10 
21
VL10
146
45
61
47


10E4
L11 
22
VL11
147
62
63
64


11D11
L12 
23
VL12
148
45
61
47


11H9
L12 
23
VL12
148
45
61
47


12E8
L13 
24
VL13
149
65
55
56


12G8
L14 
25
VL14
150
42
43
44


13H2
L15 
26
VL15
151
66
67
68


32H7
L16 
27
VL16
152
69
70
71


32H7 CS
L17 
28
VL17
153
69
70
72


32H8


VL18
154


33B5


VL19
155


33E4


VL20
156


34E3


VL21
157









In one aspect, the isolated antigen-binding proteins provided herein can be a monoclonal antibody, a polyclonal antibody, a recombinant antibody, a human antibody, a humanized antibody, a chimeric antibody, a multispecific antibody, or an antibody antigen binding fragment thereof.
In another embodiment, the antibody fragment of the isolated antigen-binding proteins provided herein can be a Fab fragment, a Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, or a single chain antibody molecule.
In a further embodiment, the isolated antigen binding protein provided herein is a human antibody and can be of the IgG1-, IgG2- IgG3- or IgG4-type.
In another embodiment, the antigen binding protein consists of a just a light or a heavy chain polypeptide as set forth in Tables 5A-5B. In some embodiments, the antigen binding protein consists just of a light chain variable or heavy chain variable domain such as those listed in Tables 5A-5B. Such antigen binding proteins can be pegylated with one or more PEG molecules.
In yet another aspect, the isolated antigen-binding protein provided herein can be coupled to a labeling group and can compete for binding to the extracellular portion of human CGRP R with an antigen binding protein of one of the isolated antigen-binding proteins provided herein. In one embodiment, the isolated antigen binding protein provided herein can reduce monocyte chemotaxis, inhibit monocyte migration into tumors or inhibit accumulation and function of tumor associated macrophage in a tumor when administered to a patient.
As will be appreciated by those in the art, for any antigen binding protein with more than one CDR from the depicted sequences, any combination of CDRs independently selected from the depicted sequences is useful. Thus, antigen binding proteins with one, two, three, four, five or six of independently selected CDRs can be generated. However, as will be appreciated by those in the art, specific embodiments generally utilize combinations of CDRs that are non-repetitive, e.g., antigen binding proteins are generally not made with two CDRH2 regions, etc.
Some of the antigen binding proteins provided are discussed in more detail below.
Antigen Binding Proteins and Binding Epitopes and Binding Domains
When an antigen binding protein is said to bind an epitope, such as one or both components of CGRP R, or the extracellular domain of CGRP R, for example, what is meant is that the antigen binding protein specifically binds to a specified portion of CGRP R, which may be on CRLR, RAMP1, or span portions of both CRLR and RAMP1. In cases where the antigen binding protein binds only CRLR (and not RAMP1), the antigen binding protein would not be expected to selectively bind CGRP R because CRLR is shared, inter alia, with AM1 and AM1 receptors. Similarly, in cases where the antigen binding protein binds only RAMP1 (and not CRLR), the antigen binding protein would not be expected to selectively bind CGRP R because RAMP1 is shared, inter alia, with AMY1 receptor. In cases where the antigen binding protein interacts with both CRLR and RAMP1, the antigen binding protein is expected to bind residues or sequences of residues, or regions in both CRLR and RAMP1. In none of the foregoing embodiments is an antigen binding protein expected to contact every residue within CRLR or RAMP1. Similarly, not every amino acid substitution or deletion within CRLR, RAMP1 or the extracellular domains thereof is expected to significantly affect binding affinity.
Methods detailed, e.g., in Example 10, maybe used to assess what regions of multimeric receptors, such as CGRP R, may be involved in binding to selected antigen binding proteins.
Competing Antigen Binding Proteins
In another aspect, antigen binding proteins are provided that compete with one of the exemplified, or “reference” antibodies or functional fragments binding to the epitope described above for specific binding to CGRP R. Such antigen binding proteins may also bind to the same epitope as one of the herein exemplified antigen binding proteins, or an overlapping epitope. Antigen binding proteins and fragments that compete with or bind to the same epitope as the exemplified or reference antigen binding proteins are expected to show similar functional properties. The exemplified antigen binding proteins and fragments include those with the heavy and light chains, variable region domains VL1-VL17 and VH1-VH13, and CDRs included in Tables 2A, 2B, 3, 4A, 4B, 5A and 5B. Thus, as a specific example, the antigen binding proteins that are provided include those that compete with an antibody having: (a) all 6 of the CDRs listed for an antibody listed in Tables 5A and 5B; (b) a VH and a VL selected from VL1-VL17 and VH1-VH13 and listed for an antibody listed in Tables 5A and 5B; or (c) two light chains and two heavy chains as specified for an antibody listed in Tables 5A and 5B. Other examples of suitable reference antibodies include those that have a heavy chain variable region having a sequence corresponding to any of the sequences identified as SEQ ID NO:158-170 and a light chain variable region having a sequence corresponding to any of the sequences identified as SEQ ID NO:137-153.
Binding competition may be assessed, for example, using a binning assays, such as the Biacore assay described in Example 7, below. In that example, 19 antibodies described herein were tested against each of six “reference” antibodies—five neutralizing antibodies (11D11, 3B6, 4H6, 12G8, and 9F5) and one non-neutralizing antibody (34E3). The assay results, shown in Table 13, indicate that all of the tested neutralizing antibodies (1E11, 1H7, 2E7, 3B6, 3C8, 4E4, 4H6, 5F5, 9D4, 9F5, 10E4, 11D11, 11H9, 12E8, 12G8, 13H2 and 32H7) bind to essentially the same region of CGRP R, which is distinct from the region of CGRP R that is bound by the non-neutralizing antibodies tested (32H8, 33B5, 33E4 and 34E3). Based on these data, any of the neutralizing antibodies would make exemplary reference antigen binding proteins in a competition assay, particularly any of the neutralizing antibodies that were immobilized in the assay described in Example 7—11D11, 3B6, 4H6, 12G8, and 9F5.
Monoclonal Antibodies
The antigen binding proteins that are provided include monoclonal antibodies that bind to CGRP R. Monoclonal antibodies may be produced using any technique known in the art, e.g., by immortalizing spleen cells harvested from the transgenic animal after completion of the immunization schedule. The spleen cells can be immortalized using any technique known in the art, e.g., by fusing them with myeloma cells to produce hybridomas. Myeloma cells for use in hybridoma-producing fusion procedures preferably are non-antibody-producing, have high fusion efficiency, and enzyme deficiencies that render them incapable of growing in certain selective media which support the growth of only the desired fused cells (hybridomas). Examples of suitable cell lines for use in mouse fusions include Sp-20, P3-X63/Ag8, P3-X63-Ag8.653, NS1/1.Ag 4 1, Sp210-Ag14, FO, NSO/U, MPC-11, MPC11-X45-GTG 1.7 and S194/5XXO Bul; examples of cell lines used in rat fusions include R210.RCY3, Y3-Ag 1.2.3, IR983F and 4B210. Other cell lines useful for cell fusions are U-266, GM1500-GRG2, LICR-LON-HMy2 and UC729-6. An exemplary method of preparing monoclonal antibodies is described in Example 2, below.
In some instances, a hybridoma cell line is produced by immunizing an animal (e.g., a transgenic animal having human immunoglobulin sequences) with a CGRP R immunogen; harvesting spleen cells from the immunized animal; fusing the harvested spleen cells to a myeloma cell line, thereby generating hybridoma cells; establishing hybridoma cell lines from the hybridoma cells, and identifying a hybridoma cell line that produces an antibody that binds CGRP R (e.g., as described in Examples 1-3, below). Such hybridoma cell lines, and anti-CGRP R monoclonal antibodies produced by them, are aspects of the present application.
Monoclonal antibodies secreted by a hybridoma cell line can be purified using any technique known in the art. Hybridomas or mAbs may be further screened to identify mAbs with particular properties, such as the ability to bind cells expressing CGRP, ability to block or interfere the binding of the CGRP ligand or CGRP8-37 peptide, or the ability to functionally block the receptor, e.g., using a cAMP assay, e.g., as described below.
Chimeric and Humanized Antibodies
Chimeric and humanized antibodies based upon the foregoing sequences are also provided. Monoclonal antibodies for use as therapeutic agents may be modified in various ways prior to use. One example is a chimeric antibody, which is an antibody composed of protein segments from different antibodies that are covalently joined to produce functional immunoglobulin light or heavy chains or immunologically functional portions thereof. Generally, a portion of the heavy chain and/or light chain is identical with or homologous to a corresponding sequence in antibodies derived from a particular species or belonging to a particular antibody class or subclass, while the remainder of the chain(s) is/are identical with or homologous to a corresponding sequence in antibodies derived from another species or belonging to another antibody class or subclass. For methods relating to chimeric antibodies, see, for example, U.S. Pat. No. 4,816,567; and Morrison et al., 1985, Proc. Natl. Acad. Sci. USA 81:6851-6855, which are hereby incorporated by reference. CDR grafting is described, for example, in U.S. Pat. Nos. 6,180,370, 5,693,762, 5,693,761, 5,585,089, and U.S. Pat. No. 5,530,101.
Generally, the goal of making a chimeric antibody is to create a chimera in which the number of amino acids from the intended patient species is maximized. One example is the “CDR-grafted” antibody, in which the antibody comprises one or more complementarity determining regions (CDRs) from a particular species or belonging to a particular antibody class or subclass, while the remainder of the antibody chain(s) is/are identical with or homologous to a corresponding sequence in antibodies derived from another species or belonging to another antibody class or subclass. For use in humans, the variable region or selected CDRs from a rodent antibody often are grafted into a human antibody, replacing the naturally-occurring variable regions or CDRs of the human antibody.
One useful type of chimeric antibody is a “humanized” antibody. Generally, a humanized antibody is produced from a monoclonal antibody raised initially in a non-human animal. Certain amino acid residues in this monoclonal antibody, typically from non-antigen recognizing portions of the antibody, are modified to be homologous to corresponding residues in a human antibody of corresponding isotype. Humanization can be performed, for example, using various methods by substituting at least a portion of a rodent variable region for the corresponding regions of a human antibody (see, e.g., U.S. Pat. Nos. 5,585,089, and 5,693,762; Jones et al., 1986, Nature 321:522-525; Riechmann et al., 1988, Nature 332:323-27; Verhoeyen et al., 1988, Science 239:1534-1536),
In one aspect, the CDRs of the light and heavy chain variable regions of the antibodies provided herein (see, Table 4) are grafted to framework regions (FRs) from antibodies from the same, or a different, phylogenetic species. For example, the CDRs of the heavy and light chain variable regions VH1, VH2, VH3, VH4, VH5, VH6, VH7, VH8, VH9, VH10, VH11, VH12, and VH13, and/or VL1, VL2, VL3, VL4, VL5, VL6, VL7, VL8, VL9, VL10, VL11, VL12, VL13, VL14, VL15, VL16, and VL17 can be grafted to consensus human FRs. To create consensus human FRs, FRs from several human heavy chain or light chain amino acid sequences may be aligned to identify a consensus amino acid sequence. In other embodiments, the FRs of a heavy chain or light chain disclosed herein are replaced with the FRs from a different heavy chain or light chain. In one aspect, rare amino acids in the FRs of the heavy and light chains of anti-CGRP R antibody are not replaced, while the rest of the FR amino acids are replaced. A “rare amino acid” is a specific amino acid that is in a position in which this particular amino acid is not usually found in an FR. Alternatively, the grafted variable regions from the one heavy or light chain may be used with a constant region that is different from the constant region of that particular heavy or light chain as disclosed herein. In other embodiments, the grafted variable regions are part of a single chain Fv antibody.
In certain embodiments, constant regions from species other than human can be used along with the human variable region(s) to produce hybrid antibodies.
Fully Human Antibodies
Fully human antibodies are also provided. Methods are available for making fully human antibodies specific for a given antigen without exposing human beings to the antigen (“fully human antibodies”). One specific means provided for implementing the production of fully human antibodies is the “humanization” of the mouse humoral immune system. Introduction of human immunoglobulin (Ig) loci into mice in which the endogenous Ig genes have been inactivated is one means of producing fully human monoclonal antibodies (mAbs) in mouse, an animal that can be immunized with any desirable antigen. Using fully human antibodies can minimize the immunogenic and allergic responses that can sometimes be caused by administering mouse or mouse-derived mAbs to humans as therapeutic agents.
Fully human antibodies can be produced by immunizing transgenic animals (usually mice) that are capable of producing a repertoire of human antibodies in the absence of endogenous immunoglobulin production. Antigens for this purpose typically have six or more contiguous amino acids, and optionally are conjugated to a carrier, such as a hapten. See, e.g., Jakobovits et al., 1993, Proc. Natl. Acad. Sci. USA 90:2551-2555; Jakobovits et al., 1993, Nature 362:255-258; and Bruggermann et al., 1993, Year in Immunol. 7:33. In one example of such a method, transgenic animals are produced by incapacitating the endogenous mouse immunoglobulin loci encoding the mouse heavy and light immunoglobulin chains therein, and inserting into the mouse genome large fragments of human genome DNA containing loci that encode human heavy and light chain proteins. Partially modified animals, which have less than the full complement of human immunoglobulin loci, are then cross-bred to obtain an animal having all of the desired immune system modifications. When administered an immunogen, these transgenic animals produce antibodies that are immunospecific for the immunogen but have human rather than murine amino acid sequences, including the variable regions. For further details of such methods, see, for example, WO96/33735 and WO94/02602. Additional methods relating to transgenic mice for making human antibodies are described in U.S. Pat. Nos. 5,545,807; 6,713,610; 6,673,986; 6,162,963; 5,545,807; 6,300,129; 6,255,458; 5,877,397; 5,874,299 and 5,545,806; in PCT publications WO91/10741, WO90/04036, and in EP 546073B1 and EP 546073A1.
The transgenic mice described above, referred to herein as “HuMab” mice, contain a human immunoglobulin gene minilocus that encodes unrearranged human heavy ([mu] and [gamma]) and [kappa] light chain immunoglobulin sequences, together with targeted mutations that inactivate the endogenous [mu] and [kappa] chain loci (Lonberg et al., 1994, Nature 368:856-859). Accordingly, the mice exhibit reduced expression of mouse IgM or [kappa] and in response to immunization, and the introduced human heavy and light chain transgenes undergo class switching and somatic mutation to generate high affinity human IgG [kappa] monoclonal antibodies (Lonberg et al., supra.; Lonberg and Huszar, 1995, Intern. Rev. Immunol. 13: 65-93; Harding and Lonberg, 1995, Ann. N.Y. Acad. Sci. 764:536-546). The preparation of HuMab mice is described in detail in Taylor et al., 1992, Nucleic Acids Research 20:6287-6295; Chen et al., 1993, International Immunology 5:647-656; Tuaillon et al., 1994, J. Immunol. 152:2912-2920; Lonberg et al., 1994, Nature 368:856-859; Lonberg, 1994, Handbook of Exp. Pharmacology 113:49-101; Taylor et al., 1994, International Immunology 6:579-591; Lonberg and Huszar, 1995, Intern. Rev. Immunol. 13:65-93; Harding and Lonberg, 1995, Ann. N.Y Acad. Sci. 764:536-546; Fishwild et al., 1996, Nature Biotechnology 14:845-851; the foregoing references are hereby incorporated by reference in their entirety for all purposes. See, further U.S. Pat. Nos. 5,545,806; 5,569,825; 5,625,126; 5,633,425; 5,789,650; 5,877,397; 5,661,016; 5,814,318; 5,874,299; and 5,770,429; as well as U.S. Pat. No. 5,545,807; International Publication Nos. WO 93/1227; WO 92/22646; and WO 92/03918, the disclosures of all of which are hereby incorporated by reference in their entirety for all purposes. Technologies utilized for producing human antibodies in these transgenic mice are disclosed also in WO 98/24893, and Mendez et al., 1997, Nature Genetics 15:146-156, which are hereby incorporated by reference. For example, the HCo7 and HCo12 transgenic mice strains can be used to generate anti-CGRP R antibodies. Further details regarding the production of human antibodies using transgenic mice are provided in the examples below.
Using hybridoma technology, antigen-specific human mAbs with the desired specificity can be produced and selected from the transgenic mice such as those described above. Such antibodies may be cloned and expressed using a suitable vector and host cell, or the antibodies can be harvested from cultured hybridoma cells.
Fully human antibodies can also be derived from phage-display libraries (as disclosed in Hoogenboom et al., 1991, J. Mol. Biol. 227:381; and Marks et al., 1991, J. Mol. Biol. 222:581). Phage display techniques mimic immune selection through the display of antibody repertoires on the surface of filamentous bacteriophage, and subsequent selection of phage by their binding to an antigen of choice. One such technique is described in PCT Publication No. WO 99/10494 (hereby incorporated by reference), which describes the isolation of high affinity and functional agonistic antibodies for MPL- and msk-receptors using such an approach.
Bispecific or Bifunctional Antigen Binding Proteins
The antigen binding proteins that are provided also include bispecific and bifunctional antibodies that include one or more CDRs or one or more variable regions as described above. A bispecific or bifunctional antibody in some instances is an artificial hybrid antibody having two different heavy/light chain pairs and two different binding sites. Bispecific antibodies may be produced by a variety of methods including, but not limited to, fusion of hybridomas or linking of Fab′ fragments. See, e.g., Songsivilai and Lachmann, 1990, Clin. Exp. Immunol. 79:315-321; Kostelny et al., 1992, J. Immunol. 148:1547-1553.
Various Other Forms
Some of the antigen binding proteins that are provided are variant forms of the antigen binding proteins disclosed above (e.g., those having the sequences listed in Tables 2-5). For instance, some of the antigen binding proteins have one or more conservative amino acid substitutions in one or more of the heavy or light chains, variable regions or CDRs listed in Tables 2-5.
Naturally-occurring amino acids may be divided into classes based on common side chain properties:
1) hydrophobic: norleucine, Met, Ala, Val, Leu, Ile;
2) neutral hydrophilic: Cys, Ser, Thr, Asn, Gln;
3) acidic: Asp, Glu;
4) basic: His, Lys, Arg;
5) residues that influence chain orientation: Gly, Pro; and
6) aromatic: Trp, Tyr, Phe.
Conservative amino acid substitutions may involve exchange of a member of one of these classes with another member of the same class. Conservative amino acid substitutions may encompass non-naturally occurring amino acid residues, which are typically incorporated by chemical peptide synthesis rather than by synthesis in biological systems. These include peptidomimetics and other reversed or inverted forms of amino acid moieties.
Non-conservative substitutions may involve the exchange of a member of one of the above classes for a member from another class. Such substituted residues may be introduced into regions of the antibody that are homologous with human antibodies, or into the non-homologous regions of the molecule.
In making such changes, according to certain embodiments, the hydropathic index of amino acids may be considered. The hydropathic profile of a protein is calculated by assigning each amino acid a numerical value (“hydropathy index”) and then repetitively averaging these values along the peptide chain. Each amino acid has been assigned a hydropathic index on the basis of its hydrophobicity and charge characteristics. They are: isoleucine (+4.5); valine (+4.2); leucine (+3.8); phenylalanine (+2.8); cysteine/cystine (+2.5); methionine (+1.9); alanine (+1.8); glycine (−0.4); threonine (−0.7); serine (−0.8); tryptophan (−0.9); tyrosine (−1.3); proline (−1.6); histidine (−3.2); glutamate (−3.5); glutamine (−3.5); aspartate (−3.5); asparagine (−3.5); lysine (−3.9); and arginine (−4.5).
The importance of the hydropathic profile in conferring interactive biological function on a protein is understood in the art (see, e.g., Kyte et al., 1982, J. Mol. Biol. 157:105-131). It is known that certain amino acids may be substituted for other amino acids having a similar hydropathic index or score and still retain a similar biological activity. In making changes based upon the hydropathic index, in certain embodiments, the substitution of amino acids whose hydropathic indices are within ±2 is included. In some aspects, those which are within ±1 are included, and in other aspects, those within ±0.5 are included.
It is also understood in the art that the substitution of like amino acids can be made effectively on the basis of hydrophilicity, particularly where the biologically functional protein or peptide thereby created is intended for use in immunological embodiments, as in the present case. In certain embodiments, the greatest local average hydrophilicity of a protein, as governed by the hydrophilicity of its adjacent amino acids, correlates with its immunogenicity and antigen-binding or immunogenicity, that is, with a biological property of the protein.
The following hydrophilicity values have been assigned to these amino acid residues: arginine (+3.0); lysine (+3.0); aspartate (+3.0±1); glutamate (+3.0±1); serine (+0.3); asparagine (+0.2); glutamine (+0.2); glycine (0); threonine (−0.4); proline (−0.5±1); alanine (−0.5); histidine (−0.5); cysteine (−1.0); methionine (−1.3); valine (−1.5); leucine (−1.8); isoleucine (−1.8); tyrosine (−2.3); phenylalanine (−2.5) and tryptophan (−3.4). In making changes based upon similar hydrophilicity values, in certain embodiments, the substitution of amino acids whose hydrophilicity values are within ±2 is included, in other embodiments, those which are within ±1 are included, and in still other embodiments, those within ±0.5 are included. In some instances, one may also identify epitopes from primary amino acid sequences on the basis of hydrophilicity. These regions are also referred to as “epitopic core regions.”
Exemplary conservative amino acid substitutions are set forth in Table 6.







TABLE 6







Conservative Amino Acid Substitutions










Original Residue
Exemplary Substitutions







Ala
Ser



 



Arg
Lys



 



Asn
Gln, His



 



Asp
Glu



 



Cys
Ser



 



Gln
Asn



 



Glu
Asp



 



Gly
Pro



 



His
Asn, Gln



 



Ile
Leu, Val



 



Leu
Ile, Val



 



Lys
Arg, Gln, Glu



 



Met
Leu, Ile



 



Phe
Met, Leu, Tyr



 



Ser
Thr



 



Thr
Ser



 



Trp
Tyr



 



Tyr
Trp, Phe



 



Val
Ile, Leu










A skilled artisan will be able to determine suitable variants of polypeptides as set forth herein using well-known techniques. One skilled in the art may identify suitable areas of the molecule that may be changed without destroying activity by targeting regions not believed to be important for activity. The skilled artisan also will be able to identify residues and portions of the molecules that are conserved among similar polypeptides. In further embodiments, even areas that may be important for biological activity or for structure may be subject to conservative amino acid substitutions without destroying the biological activity or without adversely affecting the polypeptide structure.
Additionally, one skilled in the art can review structure-function studies identifying residues in similar polypeptides that are important for activity or structure. In view of such a comparison, one can predict the importance of amino acid residues in a protein that correspond to amino acid residues important for activity or structure in similar proteins. One skilled in the art may opt for chemically similar amino acid substitutions for such predicted important amino acid residues.
One skilled in the art can also analyze the 3-dimensional structure and amino acid sequence in relation to that structure in similar polypeptides. In view of such information, one skilled in the art may predict the alignment of amino acid residues of an antibody with respect to its three dimensional structure. One skilled in the art may choose not to make radical changes to amino acid residues predicted to be on the surface of the protein, since such residues may be involved in important interactions with other molecules. Moreover, one skilled in the art may generate test variants containing a single amino acid substitution at each desired amino acid residue. These variants can then be screened using assays for CGRP R neutralizing activity, (see examples below) thus yielding information regarding which amino acids can be changed and which must not be changed. In other words, based on information gathered from such routine experiments, one skilled in the art can readily determine the amino acid positions where further substitutions should be avoided either alone or in combination with other mutations.
A number of scientific publications have been devoted to the prediction of secondary structure. See, Moult, 1996, Curr. Op. in Biotech. 7:422-427; Chou et al., 1974, Biochem. 13:222-245; Chou et al., 1974, Biochemistry 113:211-222; Chou et al., 1978, Adv. Enzymol. Relat. Areas Mol. Biol. 47:45-148; Chou et al., 1979, Ann. Rev. Biochem. 47:251-276; and Chou et al., 1979, Biophys. J. 26:367-384. Moreover, computer programs are currently available to assist with predicting secondary structure. One method of predicting secondary structure is based upon homology modeling. For example, two polypeptides or proteins that have a sequence identity of greater than 30%, or similarity greater than 40% can have similar structural topologies. The recent growth of the protein structural database (PDB) has provided enhanced predictability of secondary structure, including the potential number of folds within a polypeptide's or protein's structure. See, Holm et al., 1999, Nucl. Acid. Res. 27:244-247. It has been suggested (Brenner et al., 1997, Curr. Op. Struct. Biol. 7:369-376) that there are a limited number of folds in a given polypeptide or protein and that once a critical number of structures have been resolved, structural prediction will become dramatically more accurate.
Additional methods of predicting secondary structure include “threading” (Jones, 1997, Curr. Opin. Struct. Biol. 7:377-387; Sippl et al., 1996, Structure 4:15-19), “profile analysis” (Bowie et al., 1991, Science 253:164-170; Gribskov et al., 1990, Meth. Enzym. 183:146-159; Gribskov et al., 1987, Proc. Nat. Acad. Sci. 84:4355-4358), and “evolutionary linkage” (See, Holm, 1999, supra; and Brenner, 1997, supra).
In some embodiments, amino acid substitutions are made that: (1) reduce susceptibility to proteolysis, (2) reduce susceptibility to oxidation, (3) alter binding affinity for forming protein complexes, (4) alter ligand or antigen binding affinities, and/or (4) confer or modify other physicochemical or functional properties on such polypeptides. For example, single or multiple amino acid substitutions (in certain embodiments, conservative amino acid substitutions) may be made in the naturally-occurring sequence. Substitutions can be made in that portion of the antibody that lies outside the domain(s) forming intermolecular contacts). In such embodiments, conservative amino acid substitutions can be used that do not substantially change the structural characteristics of the parent sequence (e.g., one or more replacement amino acids that do not disrupt the secondary structure that characterizes the parent or native antigen binding protein). Examples of art-recognized polypeptide secondary and tertiary structures are described in Proteins, Structures and Molecular Principles (Creighton, Ed.), 1984, W. H. New York: Freeman and Company; Introduction to Protein Structure (Branden and Tooze, eds.), 1991, New York: Garland Publishing; and Thornton et al., 1991, Nature 354:105, which are each incorporated herein by reference.
Additional preferred antibody variants include cysteine variants wherein one or more cysteine residues in the parent or native amino acid sequence are deleted from or substituted with another amino acid (e.g., serine). Cysteine variants are useful, inter alia when antibodies must be refolded into a biologically active conformation. Cysteine variants may have fewer cysteine residues than the native antibody, and typically have an even number to minimize interactions resulting from unpaired cysteines.
The heavy and light chains, variable regions domains and CDRs that are disclosed can be used to prepare polypeptides that contain an antigen binding region that can specifically bind to CGRP R. For example, one or more of the CDRs listed in Tables 4 and 5 can be incorporated into a molecule (e.g., a polypeptide) covalently or noncovalently to make an immunoadhesion. An immunoadhesion may incorporate the CDR(s) as part of a larger polypeptide chain, may covalently link the CDR(s) to another polypeptide chain, or may incorporate the CDR(s) noncovalently. The CDR(s) enable the immunoadhesion to bind specifically to a particular antigen of interest (e.g., CGRP R or epitope thereof).
Mimetics (e.g., “peptide mimetics” or “peptidomimetics”) based upon the variable region domains and CDRs that are described herein are also provided. These analogs can be peptides, non-peptides or combinations of peptide and non-peptide regions. Fauchere, 1986, Adv. Drug Res. 15:29; Veber and Freidinger, 1985, TINS p. 392; and Evans et al., 1987, J. Med. Chem. 30:1229, which are incorporated herein by reference for any purpose. Peptide mimetics that are structurally similar to therapeutically useful peptides may be used to produce a similar therapeutic or prophylactic effect. Such compounds are often developed with the aid of computerized molecular modeling. Generally, peptidomimetics are proteins that are structurally similar to an antibody displaying a desired biological activity, such as here the ability to specifically bind CGRP R, but have one or more peptide linkages optionally replaced by a linkage selected from: —CH2NH—, —CH2S—, —CH2—CH2—, —CH—CH-(cis and trans), —COCH2—, —CH(OH)CH2—, and —CH2SO—, by methods well known in the art. Systematic substitution of one or more amino acids of a consensus sequence with a D-amino acid of the same type (e.g., D-lysine in place of L-lysine) may be used in certain embodiments to generate more stable proteins. In addition, constrained peptides comprising a consensus sequence or a substantially identical consensus sequence variation may be generated by methods known in the art (Rizo and Gierasch, 1992, Ann. Rev. Biochem. 61:387), incorporated herein by reference), for example, by adding internal cysteine residues capable of forming intramolecular disulfide bridges which cyclize the peptide.
Derivatives of the antigen binding proteins that are described herein are also provided. The derivatized antigen binding proteins can comprise any molecule or substance that imparts a desired property to the antibody or fragment, such as increased half-life in a particular use. The derivatized antigen binding protein can comprise, for example, a detectable (or labeling) moiety (e.g., a radioactive, colorimetric, antigenic or enzymatic molecule, a detectable bead (such as a magnetic or electrodense (e.g., gold) bead), or a molecule that binds to another molecule (e.g., biotin or streptavidin)), a therapeutic or diagnostic moiety (e.g., a radioactive, cytotoxic, or pharmaceutically active moiety), or a molecule that increases the suitability of the antigen binding protein for a particular use (e.g., administration to a subject, such as a human subject, or other in vivo or in vitro uses). Examples of molecules that can be used to derivatize an antigen binding protein include albumin (e.g., human serum albumin) and polyethylene glycol (PEG). Albumin-linked and PEGylated derivatives of antigen binding proteins can be prepared using techniques well known in the art. Certain antigen binding proteins include a pegylated single chain polypeptide as described herein. In one embodiment, the antigen binding protein is conjugated or otherwise linked to transthyretin (TTR) or a TTR variant. The TTR or TTR variant can be chemically modified with, for example, a chemical selected from the group consisting of dextran, poly(n-vinyl pyrrolidone), polyethylene glycols, propropylene glycol homopolymers, polypropylene oxide/ethylene oxide co-polymers, polyoxyethylated polyols and polyvinyl alcohols.
Other derivatives include covalent or aggregative conjugates of CGRP R binding proteins with other proteins or polypeptides, such as by expression of recombinant fusion proteins comprising heterologous polypeptides fused to the N-terminus or C-terminus of a CGRP R binding protein. For example, the conjugated peptide may be a heterologous signal (or leader) polypeptide, e.g., the yeast alpha-factor leader, or a peptide such as an epitope tag. CGRP antigen binding protein-containing fusion proteins can comprise peptides added to facilitate purification or identification of the CGRP R binding protein (e.g., poly-His). A CGRP R binding protein also can be linked to the FLAG peptide as described in Hopp et al., 1988, Bio/Technology 6:1204; and U.S. Pat. No. 5,011,912. The FLAG peptide is highly antigenic and provides an epitope reversibly bound by a specific monoclonal antibody (mAb), enabling rapid assay and facile purification of expressed recombinant protein. Reagents useful for preparing fusion proteins in which the FLAG peptide is fused to a given polypeptide are commercially available (Sigma, St. Louis, Mo.).
Oligomers that contain one or more CGRP R binding proteins may be employed as CGRP R antagonists. Oligomers may be in the form of covalently-linked or non-covalently-linked dimers, trimers, or higher oligomers. Oligomers comprising two or more CGRP R binding proteins are contemplated for use, with one example being a homodimer. Other oligomers include heterodimers, homotrimers, heterotrimers, homotetramers, heterotetramers, etc.
One embodiment is directed to oligomers comprising multiple CGRP R-binding polypeptides joined via covalent or non-covalent interactions between peptide moieties fused to the CGRP R binding proteins. Such peptides may be peptide linkers (spacers), or peptides that have the property of promoting oligomerization. Leucine zippers and certain polypeptides derived from antibodies are among the peptides that can promote oligomerization of CGRP R binding proteins attached thereto, as described in more detail below.
In particular embodiments, the oligomers comprise from two to four CGRP R binding proteins. The CGRP R binding protein moieties of the oligomer may be in any of the forms described above, e.g., variants or fragments. Preferably, the oligomers comprise CGRP R binding proteins that have CGRP R binding activity.
In one embodiment, an oligomer is prepared using polypeptides derived from immunoglobulins. Preparation of fusion proteins comprising certain heterologous polypeptides fused to various portions of antibody-derived polypeptides (including the Fc domain) has been described, e.g., by Ashkenazi et al., 1991, Proc. Natl. Acad. Sci. USA 88:10535; Byrn et al., 1990, Nature 344:677; and Hollenbaugh et al., 1992 “Construction of Immunoglobulin Fusion Proteins”, in Current Protocols in Immunology, Suppl. 4, pages 10.19.1-10.19.11.
One embodiment is directed to a dimer comprising two fusion proteins created by fusing a CGRP R binding protein to the Fc region of an antibody. The dimer can be made by, for example, inserting a gene fusion encoding the fusion protein into an appropriate expression vector, expressing the gene fusion in host cells transformed with the recombinant expression vector, and allowing the expressed fusion protein to assemble much like antibody molecules, whereupon interchain disulfide bonds form between the Fc moieties to yield the dimer.
The term “Fc polypeptide” as used herein includes native and mutein forms of polypeptides derived from the Fc region of an antibody. Truncated forms of such polypeptides containing the hinge region that promotes dimerization also are included. Fusion proteins comprising Fc moieties (and oligomers formed therefrom) offer the advantage of facile purification by affinity chromatography over Protein A or Protein G columns.
One suitable Fc polypeptide, described in PCT application WO 93/10151 and U.S. Pat. Nos. 5,426,048 and 5,262,522, is a single chain polypeptide extending from the N-terminal hinge region to the native C-terminus of the Fc region of a human IgG1 antibody. Another useful Fc polypeptide is the Fc mutein described in U.S. Pat. No. 5,457,035, and in Baum et al., 1994, EMBO J. 13:3992-4001. The amino acid sequence of this mutein is identical to that of the native Fc sequence presented in WO 93/10151, except that amino acid 19 has been changed from Leu to Ala, amino acid 20 has been changed from Leu to Glu, and amino acid 22 has been changed from Gly to Ala. The mutein exhibits reduced affinity for Fc receptors.
In other embodiments, the variable portion of the heavy and/or light chains of a CGRP R binding protein such as disclosed herein may be substituted for the variable portion of an antibody heavy and/or light chain.
Alternatively, the oligomer is a fusion protein comprising multiple CGRP R binding proteins, with or without peptide linkers (spacer peptides). Among the suitable peptide linkers are those described in U.S. Pat. Nos. 4,751,180 and 4,935,233.
Another method for preparing oligomeric CGRP R binding protein derivatives involves use of a leucine zipper. Leucine zipper domains are peptides that promote oligomerization of the proteins in which they are found. Leucine zippers were originally identified in several DNA-binding proteins (Landschulz et al., 1988, Science 240:1759), and have since been found in a variety of different proteins. Among the known leucine zippers are naturally occurring peptides and derivatives thereof that dimerize or trimerize. Examples of leucine zipper domains suitable for producing soluble oligomeric proteins are described in PCT application WO 94/10308, and the leucine zipper derived from lung surfactant protein D (SPD) described in Hoppe et al., 1994, FEBS Letters 344:191, hereby incorporated by reference. The use of a modified leucine zipper that allows for stable trimerization of a heterologous protein fused thereto is described in Fanslow et al., 1994, Semin. Immunol. 6:267-278. In one approach, recombinant fusion proteins comprising a CGRP R binding protein fragment or derivative fused to a leucine zipper peptide are expressed in suitable host cells, and the soluble oligomeric CGRP R binding protein fragments or derivatives that form are recovered from the culture supernatant.
In certain embodiments, the antigen binding protein has a KD (equilibrium binding affinity) of less than 1 pM, 10 pM, 100 pM, 1 nM, 2 nM, 5 nM, 10 nM, 25 nM or 50 nM.
Another aspect provides an antigen-binding protein having a half-life of at least one day in vitro or in vivo (e.g., when administered to a human subject). In one embodiment, the antigen binding protein has a half-life of at least three days. In another embodiment, the antibody or portion thereof has a half-life of four days or longer. In another embodiment, the antibody or portion thereof has a half-life of eight days or longer. In another embodiment, the antibody or antigen-binding portion thereof is derivatized or modified such that it has a longer half-life as compared to the underivatized or unmodified antibody. In another embodiment, the antigen binding protein contains point mutations to increase serum half life, such as described in WO 00/09560, published Feb. 24, 2000, incorporated by reference.
Glycosylation
The antigen-binding protein may have a glycosylation pattern that is different or altered from that found in the native species. As is known in the art, glycosylation patterns can depend on both the sequence of the protein (e.g., the presence or absence of particular glycosylation amino acid residues, discussed below), or the host cell or organism in which the protein is produced. Particular expression systems are discussed below.
Glycosylation of polypeptides is typically either N-linked or O-linked. N-linked refers to the attachment of the carbohydrate moiety to the side chain of an asparagine residue. The tri-peptide sequences asparagine-X-serine and asparagine-X-threonine, where X is any amino acid except proline, are the recognition sequences for enzymatic attachment of the carbohydrate moiety to the asparagine side chain. Thus, the presence of either of these tri-peptide sequences in a polypeptide creates a potential glycosylation site. O-linked glycosylation refers to the attachment of one of the sugars N-acetylgalactosamine, galactose, or xylose, to a hydroxyamino acid, most commonly serine or threonine, although 5-hydroxyproline or 5-hydroxylysine may also be used.
Addition of glycosylation sites to the antigen binding protein is conveniently accomplished by altering the amino acid sequence such that it contains one or more of the above-described tri-peptide sequences (for N-linked glycosylation sites). The alteration may also be made by the addition of, or substitution by, one or more serine or threonine residues to the starting sequence (for O-linked glycosylation sites). For ease, the antigen binding protein amino acid sequence may be altered through changes at the DNA level, particularly by mutating the DNA encoding the target polypeptide at preselected bases such that codons are generated that will translate into the desired amino acids.
Another means of increasing the number of carbohydrate moieties on the antigen binding protein is by chemical or enzymatic coupling of glycosides to the protein. These procedures are advantageous in that they do not require production of the protein in a host cell that has glycosylation capabilities for N- and O-linked glycosylation. Depending on the coupling mode used, the sugar(s) may be attached to (a) arginine and histidine, (b) free carboxyl groups, (c) free sulfhydryl groups such as those of cysteine, (d) free hydroxyl groups such as those of serine, threonine, or hydroxyproline, (e) aromatic residues such as those of phenylalanine, tyrosine, or tryptophan, or (f) the amide group of glutamine. These methods are described in WO 87/05330 published Sep. 11, 1987, and in Aplin and Wriston, 1981, CRC Crit. Rev, Biochem., pp. 259-306.
Removal of carbohydrate moieties present on the starting antigen binding protein may be accomplished chemically or enzymatically. Chemical deglycosylation requires exposure of the protein to the compound trifluoromethanesulfonic acid, or an equivalent compound. This treatment results in the cleavage of most or all sugars except the linking sugar (N-acetylglucosamine or N-acetylgalactosamine), while leaving the polypeptide intact. Chemical deglycosylation is described by Hakimuddin et al., 1987, Arch. Biochem. Biophys. 259:52 and by Edge et al., 1981, Anal. Biochem. 118:131. Enzymatic cleavage of carbohydrate moieties on polypeptides can be achieved by the use of a variety of endo- and exo-glycosidases as described by Thotakura et al., 1987, Meth. Enzymol. 138:350. Glycosylation at potential glycosylation sites may be prevented by the use of the compound tunicamycin as described by Duskin et al., 1982, J. Biol. Chem. 257:3105. Tunicamycin blocks the formation of protein-N-glycoside linkages.
Hence, aspects include glycosylation variants of the antigen binding proteins wherein the number and/or type of glycosylation site(s) has been altered compared to the amino acid sequences of the parent polypeptide. In certain embodiments, antibody protein variants comprise a greater or a lesser number of N-linked glycosylation sites than the native antibody. An N-linked glycosylation site is characterized by the sequence: Asn-X-Ser or Asn-X-Thr, wherein the amino acid residue designated as X may be any amino acid residue except proline. The substitution of amino acid residues to create this sequence provides a potential new site for the addition of an N-linked carbohydrate chain. Alternatively, substitutions that eliminate or alter this sequence will prevent addition of an N-linked carbohydrate chain present in the native polypeptide. For example, the glycosylation can be reduced by the deletion of an Asn or by substituting the Asn with a different amino acid. In other embodiments, one or more new N-linked sites are created. Antibodies typically have a N-linked glycosylation site in the Fc region.
Labels and Effector Groups
In some embodiments, the antigen-binding comprises one or more labels. The term “labeling group” or “label” means any detectable label. Examples of suitable labeling groups include, but are not limited to, the following: radioisotopes or radionuclides (e.g., 3H, 14C, 15N, 35S, 90Y, 99Tc, 111In, 125I, 131I), fluorescent groups (e.g., FITC, rhodamine, lanthanide phosphors), enzymatic groups (e.g., horseradish peroxidase, β-galactosidase, luciferase, alkaline phosphatase), chemiluminescent groups, biotinyl groups, or predetermined polypeptide epitopes recognized by a secondary reporter (e.g., leucine zipper pair sequences, binding sites for secondary antibodies, metal binding domains, epitope tags). In some embodiments, the labeling group is coupled to the antigen binding protein via spacer arms of various lengths to reduce potential steric hindrance. Various methods for labeling proteins are known in the art and may be used as is seen fit.
The term “effector group” means any group coupled to an antigen binding protein that acts as a cytotoxic agent. Examples for suitable effector groups are radioisotopes or radionuclides (e.g. 3H, 14C, 15N, 35S, 90Y, 99Tc, 111In, 125I, 131I). Other suitable groups include toxins, therapeutic groups, or chemotherapeutic groups. Examples of suitable groups include calicheamicin, auristatins, geldanamycin and maytansine. In some embodiments, the effector group is coupled to the antigen binding protein via spacer arms of various lengths to reduce potential steric hindrance.
In general, labels fall into a variety of classes, depending on the assay in which they are to be detected: a) isotopic labels, which may be radioactive or heavy isotopes; b) magnetic labels (e.g., magnetic particles); c) redox active moieties; d) optical dyes; enzymatic groups (e.g. horseradish peroxidase, β-galactosidase, luciferase, alkaline phosphatase); e) biotinylated groups; and f) predetermined polypeptide epitopes recognized by a secondary reporter (e.g., leucine zipper pair sequences, binding sites for secondary antibodies, metal binding domains, epitope tags, etc.). In some embodiments, the labeling group is coupled to the antigen binding protein via spacer arms of various lengths to reduce potential steric hindrance. Various methods for labeling proteins are known in the art.
Specific labels include optical dyes, including, but not limited to, chromophores, phosphors and fluorophores, with the latter being specific in many instances. Fluorophores can be either “small molecule” fluores, or proteinaceous fluores.
By “fluorescent label” is meant any molecule that may be detected via its inherent fluorescent properties. Suitable fluorescent labels include, but are not limited to, fluorescein, rhodamine, tetramethylrhodamine, eosin, erythrosin, coumarin, methyl-coumarins, pyrene, Malacite green, stilbene, Lucifer Yellow, Cascade BlueJ, Texas Red, IAEDANS, EDANS, BODIPY FL, LC Red 640, Cy 5, Cy 5.5, LC Red 705, Oregon green, the Alexa-Fluor dyes (Alexa Fluor 350, Alexa Fluor 430, Alexa Fluor 488, Alexa Fluor 546, Alexa Fluor 568, Alexa Fluor 594, Alexa Fluor 633, Alexa Fluor 647, Alexa Fluor 660, Alexa Fluor 680), Cascade Blue, Cascade Yellow and R-phycoerythrin (PE) (Molecular Probes, Eugene, Oreg.), FITC, Rhodamine, and Texas Red (Pierce, Rockford, Ill.), Cy5, Cy5.5, Cy7 (Amersham Life Science, Pittsburgh, Pa.). Suitable optical dyes, including fluorophores, are described in MOLECULAR PROBES HANDBOOK by Richard P. Haugland, hereby expressly incorporated by reference.
Suitable proteinaceous fluorescent labels also include, but are not limited to, green fluorescent protein, including a Renilla, Ptilosarcus, or Aequorea species of GFP (Chalfie et al., 1994, Science 263:802-805), EGFP (Clontech Labs., Inc., Genbank Accession Number U55762), blue fluorescent protein (BFP, Quantum Biotechnologies, Inc., Quebec, Canada; Stauber, 1998, Biotechniques 24:462-471; Heim et al., 1996, Curr. Biol. 6:178-182), enhanced yellow fluorescent protein (EYFP, Clontech Labs., Inc.), luciferase (Ichiki et al., 1993, J. Immunol. 150:5408-5417), β galactosidase (Nolan et al., 1988, Proc. Natl. Acad. Sci. U.S.A. 85:2603-2607) and Renilla (WO92/15673, WO95/07463, WO98/14605, WO98/26277, WO99/49019, U.S. Pat. Nos. 5,292,658, 5,418,155, 5,683,888, 5,741,668, 5,777,079, 5,804,387, 5,874,304, 5,876,995, 5,925,558).
Nucleic Acid Sequences Encoding CGRP Antigen Binding Proteins
Nucleic acids that encode for the antigen binding proteins described herein, or portions thereof, are also provided, including nucleic acids encoding one or both chains of an antibody, or a fragment, derivative, mutein, or variant thereof, polynucleotides encoding heavy chain variable regions or only CDRs, polynucleotides sufficient for use as hybridization probes, PCR primers or sequencing primers for identifying, analyzing, mutating or amplifying a polynucleotide encoding a polypeptide, anti-sense nucleic acids for inhibiting expression of a polynucleotide, and complementary sequences of the foregoing. The nucleic acids can be any length. They can be, for example, 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 75, 100, 125, 150, 175, 200, 250, 300, 350, 400, 450, 500, 750, 1,000, 1,500 or more nucleotides in length, and/or can comprise one or more additional sequences, for example, regulatory sequences, and/or be part of a larger nucleic acid, for example, a vector. The nucleic acids can be single-stranded or double-stranded and can comprise RNA and/or DNA nucleotides, and artificial variants thereof (e.g., peptide nucleic acids).
Table 7 shows exemplary nucleic acid sequences encoding an IgG2 heavy chain constant region, a kappa light chain constant region and a lambda hCL-1 light chain constant region. Any variable region provided herein may be attached to these constant regions to form complete heavy and light chain sequences. However, it should be understood that these constant regions sequences are provided as specific examples only—one of skill in the art may employ other constant regions, including IgG1 heavy chain constant region, IgG3 or IgG4 heavy chain constant regions, any of the seven lambda light chain constant regions, including hCL-1, hCL-2, hCL-3 and hCL-7; constant regions that have been modified for improved stability, expression, manufacturability or other desired characteristics, and the like. In some embodiments, the variable region sequences are joined to other constant region sequences that are known in the art. Exemplary nucleic acid sequences encoding heavy and light chain variable regions are provided in Table 8.







TABLE 7







Exemplary Heavy And Light Chain


Constant Region Nucleic Acid Sequences








Type
Nucleic Acid Sequence/SEQ ID NO.





IgG2 heavy
gctagcaccaagggcccatcggtcttccccctggcgccc


chain
tgctccaggagcacctccgagagcacagcggccctgggc



tgcctggtcaaggactacttccccgaaccggtgacggtg



tcgtggaactcaggcgctctgaccagcggcgtgcacacc



ttcccagctgtcctacagtcctcaggactctactccctc



agcagcgtggtgaccgtgccctccagcaacttcggcacc



cagacctacacctgcaacgtagatcacaagcccagcaac



accaaggtggacaagacagttgagcgcaaatgttgtgtc



gagtgcccaccgtgcccagcaccacctgtggcaggaccg



tcagtcttcctcttccccccaaaacccaaggacaccctc



atgatctcccggacccctgaggtcacgtgcgtggtggtg



gacgtgagccacgaagaccccgaggtccagttcaactgg



tacgtggacggcgtggaggtgcataatgccaagacaaag



ccacgggaggagcagttcaacagcacgttccgtgtggtc



agcgtcctcaccgttgtgcaccaggactggctgaacggc



aaggagtacaagtgcaaggtctccaacaaaggcctccca



gcccccatcgagaaaaccatctccaaaaccaaagggcag



ccccgagaaccacaggtgtacaccctgcccccatcccgg



gaggagatgaccaagaaccaggtcagcctgacctgcctg



gtcaaaggcttctaccccagcgacatcgccgtggagtgg



gagagcaatgggcagccggagaacaactacaagaccaca



cctcccatgctggactccgacggctccttcttcctctac



agcaagctcaccgtggacaagagcaggtggcagcagggg



aacgtcttctcatgctccgtgatgcatgaggctctgcac



aaccactacacgcagaagagcctctccctgtctccgggt



aaatga



[SEQ ID NO: 259]


 


IgG2 kappa
cgtacggtggctgcaccatctgtcttcatcttcccgcca


light chain
tctgatgagcagttgaaatctggaactgcctctgttgtg



tgcctgctgaataacttctatcccagagaggccaaagta



cagtggaaggtggataacgccctccaatcgggtaactcc



caggagagtgtcacagagcaggacagcaaggacagcacc



tacagcctcagcagcaccctgacgctgagcaaagcagac



tacgagaaacacaaagtctacgcctgcgaagtcacccat



cagggcctgagctcgcccgtcacaaagagcttcaacagg



ggagagtgttag



[SEQ ID NO: 260]


 


IgG2 lambda
ggtcagcccaaggccaaccccactgtcactctgttcccg


hCL-1 light
ccctcctctgaggagctccaagccaacaaggccacacta


chain
gtgtgtctgatcagtgacttctacccgggagctgtgaca



gtggcctggaaggcagatggcagccccgtcaaggcggga



gtggagaccaccaaaccctccaaacagagcaacaacaag



tacgcggccagcagctacctgagcctgacgcccgagcag



tggaagtcccacagaagctacagctgccaggtcacgcat



gaagggagcaccgtggagaagacagtggcccctacagaa



tgttcatag



[SEQ ID NO: 261]









Table 8 shows exemplary nucleic acid sequences encoding heavy chain and light chain variable regions, in which the various CDRL1, CDRL2 and CDRL3, or CDRH1, CDRH2 and CDRH3, sequences are embedded.







TABLE 8







Exemplary Light and Heavy Chain


Variable Region Nucleic Acid Sequences










SEQ ID



Reference
NO.
Nucleic Acid Sequence





2E7 VL
175
gacatccagatgacccagtctccatcctc




cctgtctgcatctgtaggagacagagtca




ccatcacttgccgggcaagtcagggcatt




agaaatgatttaggctggtttcagcagaa




accagggaaagcccctaagcgcctgatct




atgctgcatccagtttgcaaagtggggtc




ccatcaaggttcagcggcagtggatctgg




gacagaattcactctcacaatcagcagcc




tgcagcctgaagatttagcaacttattac




tgtctacagtataatatttacccgtggac




gttcggccaagggaccaaggtggaaatca




aa


 


13H2 VL
176
gacatccagatgacccagtctccatcctc




cctgtctgcatctgtaggagacagagtca




ccatcacttgccgggcaagtcagggcatt




agaaaggatttaggctggtatcagcagaa




accagggaaagcccctaagcgcctgatct




atggagcatccagtttgcaaagtggggtc




ccatcaaggttcagcggcagtggatctgg




gacagaattcactctcacaatcagcagcc




tgcagcctgaagattttgcaacttattac




tgtctacagtataatagtttcccgtggac




gttcggccaagggaccaaggtggaaatca




aa


 


33B5 VL
177
aggtgcagctggtgcagtctggggctgag




gtgaagaagtctggggcctcagtgaaggt




ctcctgcaaggcttctggatacaccttca




ccggctactatatgcactgggtgcgacag




gcccctggacaagggcttgagtggatggg




atggatcaaccctaacagtggtggcacaa




actatgtacagaagtttcagggcagggtc




accatgaccagggacacgtccatcagcac




agcctacatggagctgagcaggctgagat




ctgacgacacggccgtgtattactgtgcg




agaaatgagtatagcagtgcctggccctt




ggggtattggggccagggaaccctggtca




ccgtctctagt


 


4H6 VL
178
gatattgtgatgactcagtctccactctc




cctgcccgtcacccctggagagccggcct




ccatctcctgcaggtctagtcagagcctc




ctgcatagttttgggtacaactatttgga




ttggtacctgcagaagccagggcagtctc




cacagctcctgatctatttgggttctaat




cgggcctccggggtccctgacaggttcag




tggcagtggatcaggcacagattttacac




tgaaaatcagcagagtggaggctgaggat




gttggggtttattactgcatgcaagctct




acaaactccattcactttcggccctggga




ccaaagtggatatcaaa


 


3C8 VL
179
gatattatactggcccagactccactttc




tctgtccgtcacccctggacagccggcct




ccatctcctgcaagtctagtcagagcctc




ctgcacagtgctggaaagacctatttgta




ttggtacctgcagaagccaggccagcctc




cacagctcctgatctatgaagtttccaac




cggttctctggagtgccagataggttcag




tggcagcgggtcagggacagatttcacac




tgaaaatcagccgggtggaggctgaggat




gttgggatttattactgcatgcaaagttt




tccgcttccgctcactttcggcggaggga




ccaaggtggagatcaaa


 


5F5 VL
180
gatattattctgacccagactccactttc




tctgtccgtcacccctggacagccggcct




ccatctcctgcaagtctagtcagagcctc




ctgcacagtgatggaaagacctatttgta




ttggtacctgcagaagcccggccagcctc




cacagctcctgatctatgaagtttccaac




cggttctctggagagccagataggttcag




tggcagcgggtcagggacagatttcacac




tgaaaatcagccgggtggaggctgaggat




gttgggacttattattgcatgcaaagttt




tccgcttccgctcactttcggcggaggga




ccaaggtggagatcaaa


 


12E8 VL
181
gatattacactgacccagactccactttc




tctgtccgtctcccctggacagccggcct




ccatctcctgcaagtctagtcagagcctc




ctgcacagtgatggaaggaactatctgta




ttggtacctgcagaagccaggccagcctc




cacagctcctgatctatgaagtgtccaac




cggttctctggactgccagataggttcag




tggcagcgggtcagggacagatttcacac




tgaaaatcagccgggtggaggctgaggat




gttgggatttattactgcatgcaaagttt




tccgcttccgctcactttcggcggaggga




ccaaggtggagatcaaa


 


32H7 VL
182
gaaattgtgttgacgcagtctccaggcac




cctgtctttgtctccaggggaaagagcca




ccctctcctgcagggccagtcagagtgtt




agcagcggctacttaacctggtaccagca




gaaacctggccaggctcccaggctcctca




tctatggtgcatccagcagggccactggc




atcccagacaggttcagtggcagtgggtc




tgggacagacttcactctcaccatcagca




gactggagcctgaagattttgcagtgtat




tactgtcagcagtatggtaactcactgtg




caggtttggccaggggaccaagctggaga




tcaaa


 


32H7 CS
183
gaaattgtgttgacgcagtctccaggcac


VL

cctgtctttgtctccaggggaaagagcca




ccctctcctgcagggccagtcagagtgtt




agcagcggctacttaacctggtaccagca




gaaacctggccaggctcccagactcctca




tctatggtgcatccagcagggccactggc




atcccagacaggttcagtggcagtgggtc




tgggacggacttcactctcaccatcagca




gactggagcctgaagattttgcagtgtat




tactgtcagcagtatggtaactcactgag




caggtttggccaggggaccaagctggaga




tcaaa


 


33E4 VL
184
gaaatagtgatgacgcagtctccagccac




cctgtctgtgtctccaggggaaagagcca




ccctctcctgtagggccagtcagagtgtt




cgcagcaatttagcctggtaccagcagaa




acctggccaggctcccaggctcctcattc




atgatgcatcccccaggaccgctggtatc




ccagccaggttcagtggcagtggatctgg




gacagaattcactctcaccatcaacagcc




tgcagtctgaagattttgcagtttattac




tgtcagcagtataattactggactccgat




caccttcggccaagggacacgactggaga




ttaaa


 


32H8 VL
185
gacatcgtgatgacccagtctccagactc




cctggctgtgtctctgggcgagagggcca




ccatcaactgcaagtccagccagagtatt




ttagacagctccaacaatgataactactt




agcttggtaccagcagaaaccaggacagc




ctcctaaactgctcatttactgggcatct




acccgggaatccggggtccctgaccgatt




cagtggcagcgggtctgggacagatttca




ctctcaccatcagcagcctgcaggctgaa




gatgtggcagtttattactgtcagcaata




ttataatactccattcactttcggccctg




ggaccaaagtggatatcaaa


 


1E11 VL
186
cagtctgtgttgacgcagccgccctcagt




gtctgaggccccaggacagaaggtcacca




tctcctgctctggaagcagctccaacatt




gggaataattatgtatcctggtaccagca




gctcccaggaacagcccccaaactcctca




tttatgacaataataagcgaccctcaggg




attcctgaccgattctctggctccaagtc




tggcacgtcagccaccctgggcatcaccg




gactccagactggggacgaggccgattat




tactgcggaacatgggatagccgcctgag




tgctgtggttttcggcggagggaccaagc




tgaccgtccta


 


4E4 VL
187
cagtctgtgttgacgcagccgccctcagt




gtctgcggccccaggacagaaggtcacca




tctcctgctctggaagcagctccaacatt




gggaataattatgtatcctggtaccagca




gctcccaggaacagcccccaaactcctca




tttatgacaataataagcgaccctcaggg




attcctgaccgattctctggctccaagtc




tggcacgtcaaccaccctgggcatcaccg




gactccagactggggacgaggccgattat




tactgcggaacatgggatagccgcctgag




tgctgtggttttcggcggagggaccaagc




tgaccgtccta


 


9D4 VL
188
cagtctgtgttgacgcagccgccctcagt




gtctgcggccccaggacagaaggtcacca




tctcctgctctggaagcagctccaacatt




gggaataattatgtatcctggtaccagca




gttcccaggaacagcccccaaactcctca




tttatgacaataataagcgaccctcaggg




attcctgaccgattctctggctccaagtc




tggcacgtcagccaccctgggcatcaccg




gactccagactggggacgaggccgattat




tactgcggaacatgggatagccgcctgag




tgctgtggttttcggcggagggaccaagc




tgaccgtccta


 


12G8 VL
189
cagtctgtgttgacgcagccgccctcagt




gtctgcggccccaggacagaaggtcacca




tctcctgctctggaagcagctccaacatt




gggaataattatgtatcctggtaccagca




gctcccaggaacagcccccaaactcctca




tttatgacaataataagcgaccctcaggg




attcctgaccgattctctggctccaagtc




tggcacgtcagccaccctgggcatcaccg




gactccagactggggacgaggccgattat




tactgcggaacatgggatagccgcctgag




tgctgtggttttcggcggagggaccaagc




tgaccgtccta


 


34E3 VL
190
cagtctgtgttgacgcagccgccctcaat




gtctgcggccccaggacagaaggtcacca




tctcctgctctggaagcagctccaacatt




gggaataattatgtatcctggtaccagca




gctcccaggaacagcccccaaactcctca




tttatgacaataataagcgaccctcaggg




attcctgaccgattctctggctccaagtc




tggcacgtcagccaccctgggcatcaccg




gactccagactggggacgaggccaattac




tgctgcggaacatgggatatcggcctgag




tgtttgggtgttcggcggagggaccaaac




tgaccgtccta


 


10E4 VL
191
cagtctgtgctgactcagccaccctcagc




gtctgggacccccgggcagagggtcacca




tctcttgttctggaagcagttccaatatc




ggaagtaatactgtgaactggtaccagca




gctcccaggaacggcccccaaactcctca




tctatactaataatcagcggccctcaggg




gtccctgaccgattctctggctccaagtc




tggcacctcagcctccctggccatcagtg




gactccagtctgaggatgaggctgatttt




tactgtgcagcgcgggatgagagcctgaa




tggtgtggtattcggcggagggaccaagc




tgaccgtccta


 


11D11 VL
192
cagtctgtgctgactcagccaccctcagc


11H9 VL

gtctgggacccccgggcagagagtcacca




tctcttgttctggaagcagctccaacatc




ggcagtaattatgtatactggtaccagca




gctcccaggagcggcccccaaactcctca




tctttaggaataatcagcggccctcaggg




gtccctgaccgcttctctggctccaagtc




tggcacctcagcctccctggccatcagtg




ggctccggtccgaggatgaggctgattat




tactgtgcagcatgggatgacagcctgag




tggttgggtgttcggcggagggaccaagc




tgaccgtccta


 


1H7 VL
193
cagtctgtgctgactcagccaccctcagc




gtctgggacccccgggcagagagtcacca




tctcttgttctggaagcagctccaacatc




ggcagtaattatgtatactggtaccagca




gctcccaggagcggcccccaaactcctca




tctttaggagtaatcagcggccctcaggg




gtccctgaccgattctctggctccaagtc




tggcacctcagcctccctggccatcagtg




ggctccggtccgaggatgaggctgattat




tactgtgcagcatgggatgacagcctgag




tggttgggtgttcggcggagggaccaagc




tgaccgtccta


 


9F5 VL
194
cagtctgtgctgactcagtcaccctcagc




gtctgggacccccgggcagagagtcacca




tctcttgttctggaagcagctccaacatc




ggcagtaattatgtatactggtaccagca




gctcccaggagcggcccccaaactcctca




tccttaggaataatcagcggccctcaggg




gtccctgaccgattctctggctccaagtc




tggcacctcagcctccctgaccatcagtg




ggctccggtccgaggatgaggctgactat




tattgtgcagcatgggatgacagcctgag




tggttgggtgttcggcggagggaccaagc




tgaccgtccta


 


3B6 VL
195
tcttctgagctgactcaggaccctactgt




gtctgtggccttgggacagacagtcaaaa




tcacatgccaaggagacagcctcagaagt




ttttatgcaagctggtaccagcagaagcc




aggacaggcccctgtacttgtcttctatg




gtaaaaacaaccggccctcagggatccca




gaccgattctctggctccagctcaggaaa




cacagcttccttgaccatcactggggctc




aggcggaagatgaggctgactattattgt




aattcccgggacagcagtgtttaccatct




ggtactcggcggagggaccaagctgaccg




tccta


 


3B6 VH
196
caggtgcagttggtgcagtctggggctga




ggtgaagaagcctggggcctcagtgaagg




tctcctgcaaggcttctggatacaccttc




accggctactatatgcactgggtgcgaca




ggcccctggacaagggcttgagtggatgg




gatggatcaaccctaacagtggtggcaca




aactatgcacagaagtttcagggcagggt




caccatgaccagggacacgtccatcagca




cagcctacatggagctgagcaggctgaga




tctgacgacacggccgtgtatttctgtgc




gagagatcaaatgagtattattatgcttc




ggggagtttttcccccttactattacggt




atggacgtctggggccaagggaccacggt




caccgtctctagt


 


10E4 VH
197
caggtgcagctggtgcagtctggggctga




ggtgaagaagcctggggcctcagtgaagg




tctcctgcaaggcttctggatacaccttc




accgactactatatgtactgggtgcgaca




ggcccctggacaagggcttgagtggatgg




gatggatcagccctaatagtggtggcaca




aactatgcccagaagtttcagggcagggt




caccatgaccagggacacgtctatcagca




cagcctacatggagctgagtaggctgaga




tctgacgacacggccgtgtattactgtgt




gagaggaggatatagtggctacgctgggc




tctactcccactactacggtatggacgtc




tggggccaagggaccacggtcaccgtctc




tagt


 


32H8 VH
198
caggtgcagctggtgcagtctggggctga




ggtgaagaagcctggggcctcagtgaagg




tctcctgcaaggcttctggatacaccttc




accgcctactatttacactgggtgcgaca




ggcccctggacaagggcttgagtggatgg




gatggatcaaccctcacagtggtggcaca




aactatgcacagaagtttcagggcagggt




caccatgaccagggacacgtccatcagca




cagcctacatggagctgagcaggctgaga




tctgacgacacggccgtgttctactgtgc




gagaggaaggcagtggctgggctttgact




actggggccagggaaccctggtcaccgtc




tctagt


 


33B5 VH
199
gacatccagatgacccagtctccatcctc




cctgtctgcatctgtaggagacagagtta




ccattacttgccgggcaagtcagggcatt




agaaatgatttaggctggtatcagcagaa




accagggaaagcccctaagcgcctgatct




atgttgcatccagtttgcaaagtggggtc




ccatcaaggttcagcggcagtggatctgg




gacagaattcactctcacaatcagcagcc




tgcagcctgaagattttgcaacttattac




tgtctacagtataacacttacccgctcac




tttcggcggagggaccaaggtggagatca




ag


 


11D11 VH
200
gaggtacagctggtggagtctgggggagg




cttggtaaagcctggggggtccctcagac




tctcctgtgcagcctctggattcactttc




ggtaacgcctggatgagctgggtccgcca




ggctccagggaaggggctggagtgggttg




gccgtattaaaagcaaaactgatggtggg




acaacagactacgctgcacccgtgaaagg




cagattcaccatctcaagagatgattcaa




aaaacacgctgtatctgcaaatgaacagc




ctgaaaaccgaggacacagccgtgtattt




ctgtaccacagatcggaccgggtatagca




tcagctggtctagttactactactactac




ggtatggacgtctggggccaagggaccac




ggtcaccgtctctagt


 


9F5 VH
201
gaggtgcagctggtggagtctgggggagg




cttggtaaagcctggggggtcccttagac




tctcctgtgcagcctctggattcactttc




agtaacgcctggatgagctgggtccgcca




ggctccagggaaggggctggagtgggttg




gccgtattaaaagcaaaactgatggtggg




acaacagactacactgcacccgtgaaagg




cagattcaccatctcaagagatgattcaa




aaaacacgctgtatctgcaaatgaatagc




ctgaaagccgaggacacagccgtgtatta




ctgtaccacagatcggaccgggtatagca




tcagctggtctagttactactactactac




ggtatggacgtctggggccaagggaccac




ggtcaccgtctctagt


 


11H9 VH
202
gaggtacagctggtggagtctgggggagg




cttggtaaagcctggggggtcccttagac




tctcctgtgcagcctctggattcactttc




ggtaacgcctggatgagctgggtccgcca




ggctccagggaaggggctggagtgggttg




gccgtattaaaagcaaaactgatggtggg




acaacagactacgctgcacccgtgaaagg




cagattcaccatctcaagagatgattcaa




aaaacacgctgtatctgcaaatgaacagc




ctgaaaaccgaggacacagccgtgtatta




ctgtaccacagatcggaccgggtatagca




tcagctggtctagttactactactactac




ggtatggacgtctggggccaagggaccac




ggtcaccgtctctagt


 


1H7 VH
203
gaggtgcagctggtggagtctgggggagg




cttggtaaagcctggggggtcccttagac




tctcctgtgcagcctctggattcactttc




agtaacgcctggatgagctgggtccgcca




ggctccagggaaggggctggagtgggttg




gccgtattaaaagcacaactgatggtggg




acaacagactacgctgcacccgtgaaagg




cagattcaccatctcaagagatgattcaa




aaaacacgctgtatctgcaaatgaacagc




ctgaaaaccgaggacacagccgtgtatta




ctgtaccacagatcggaccggatatagca




tcagctggtctagttactactactactac




ggtatggacgtctggggccaagggaccac




ggtcaccgtctctagt


 


13H2 VH
204
gaggtgcagctggtggagtctgggggagg




cctggtcaagcctggggggtccctgagac




tctcctgtgcagcctctggatacaccttc




agtacctatagcatgaactgggtccgcca




ggctccagggaaggggctggagtgggtct




catccattagtagtagtagtagttacaga




tattacgcagactcagtgaagggccgatt




caccatctccagagacaacgccaagaact




cactgtatctgcaaatgagtagcctgaga




gccgaggacacggctgtgtattactgtgc




gagagaaggggtgtctggcagttcgccgt




atagcatcagctggtacgactactattac




ggtatggacgtctggggccaagggaccac




ggtcaccgtctctagt


 


2E7 VH
205
gaggtgcagctattggagtctgggggagg




cttggtacagcctggggagtccctgagac




tctcctgtgcagcctctgggttcaccttt




agcagctatgccatgagctgggtccgcca




ggctccagggaaggggctggagtgggtct




cagctattagtggtagtggtggtcgcaca




tactacgcagactccgtgaagggccggtt




caccatctccagagacaattccaagaaca




cgctgtatctgcaaatgaatagcctgaga




gccgaggacacggccgtatattactgtgc




gaaagatcaaagggaggtagggccgtata




gcagtggctggtacgactactactacggt




atggacgtctggggccaagggaccacggt




caccgtctctagt


 


3C8 VH
206
caggtgcagctggtggagtctgggggagg


12E8 VH

cgtggtccagcctgggaggtccctgagac


5F5 VH

tctcctgtgcagcctctggattcaccttc




agtagctatggcatgcactgggtccgcca




ggctccaggcaaggggctggagtgggtgg




cagttatttcatatgatggaagtcatgaa




tcctatgcagactccgtgaagggccgatt




caccatctccagagacatttccaagaaca




cgctgtatctgcaaatgaacagcctgaga




gctgaggacacggctgtgtatttctgtgc




gagagagaggaaacgggttacgatgtcta




ccttatattactacttctactacggtatg




gacgtctggggccaagggaccacggtcac




cgtctctagt


 


4E4 VH
207
caggtgcagctggtggaatctgggggagg


9D4 VH

cgtggtccagcctgggaggtccctgagac


1E11 VH

tctcctgtgcagcctctggattcaccttc




agtagctttggcatgcactgggtccgcca




ggctccaggcaaggggctggagtgggtgg




cagttatatcatttgatggaagtattaag




tattctgtagactccgtgaagggccgatt




caccatctccagagacaattcaaagaaca




cgctgtttctgcaaatgaacagcctgcga




gccgaggacacggctgtgtattactgtgc




gagagatcggctcaattactatgatagta




gtggttattatcactacaaatactacggt




atggccgtctggggccaagggaccacggt




caccgtctctagt


 


12G8 VH
208
caggtgcagctggtggaatctgggggagg




cgtggtccagcctgggaggtccctgagac




tctcctgtgcagcctctggattcaccttc




agtagctttggcatgcattgggtccgcca




ggctccaggcaaggggctggagtgggtgg




cagttatatcatttgatggaagtattaag




tactctgtagactccgtgaagggccgatt




caccatctccagagacaattcaaagaaca




cgctgtttctgcaaatgaacagcctgcga




gccgaggacacggctgtgtattactgtgc




gagagatcggctcaattactatgatagta




gtggttattatcactacaaatactacggt




ctggccgtctggggccaagggaccacggt




caccgtctctagt


 


4H6 VH
209
gaggtgcagctggtggagtctgggggagg




cttggtaaagccagggcggtccctgagac




tctcctgtacagcttctggattcaccttt




ggtgattatgctatgagctggttccgcca




ggctccagggaaggggctggagtggatag




gtttcattagaagcagagcttatggtggg




acaccagaatacgccgcgtctgtgaaagg




cagattcaccatctcaagagatgattcca




aaaccatcgcctatctgcaaatgaacagc




ctgaaaaccgaggacacagccgtgtattt




ctgtgctagaggacggggtattgcagctc




gttgggactactggggccagggaaccctg




gtcaccgtctctagt


 


32H7 VH
210
caggtgcagctggtggagtctgggggagg




cgtggtccagcctgggaggtccctgagac




tctcctgtgcagcgtctggattcaccttc




agtagctatggcatgcactgggtccgcca




ggctccaggcaaggggctggagtgggtgg




cagttatatggtatgatggaagtaataaa




tactatgcagactccgtgaagggccgatt




catcatctccagagataaatccaagaaca




cgctgtatctgcaaatgaacagcctgaga




gccgaggacacggctgtgtattactgtgc




gagagcggggggtatagcagcagctggcc




tctactactactacggtatggacgtctgg




ggccaagggaccacggtcaccgtctctag




t


 


33E4 VH
211
caggtgcagttacagcagtggggcgcagg




actgttgaagccttcggagaccctgtccc




tcagctgcgctgtctatggtgggtccttc




ggtggttactactggagctggatccgcca




gcccccagggaaggggctggagtggattg




gggaaatcaatcatagtggaggcaccaag




tacaacccgtccctcaagagtcgagtcac




catatcagtagacacgtccaagaaccagt




tctccctgaagctgagctctgtgaccgcC




gcggacacggctgtgtatttctgtgcgag




aggcgatgtagtaggtttctttgactatt




ggggccagggaaccctggtcaccgtctct




agt









Table 9 shows the SEQ ID NOs of exemplary nucleic acid sequences encoding complete heavy and light chains, as well as heavy and light chain variable regions, of exemplary isolated antigen-binding proteins, specifically, hCGRP R binding proteins, disclosed herein.







TABLE 9







Exemplary HC, LC, VH and VL Nucleic Acid Sequence SEQ ID NOs












Variable Light
Variable Heavy





SEQ ID
SEQ ID
Full Light
Full Heavy


Ref
NO.
NO.
SEQ ID NO.
SEQ ID NO














2E7
175
205
226
244


13H2
176
204
239
257


4H6
178
209
230
248


3C8
179
206
228
246


5F5
180
206
231
249


12E8
181
206
237
255


1E11
186
207
224
242


4E4
187
207
229
247


9D4
188
207
232
250


12G8
189
208
238
256


10E4
191
197
234
252


11D11
192
200
235
253


11H9
192
202
236
254


1H7
193
203
225
243


9F5
194
201
233
251


3B6
195
196
227
245


32H7
182
210
240
258


32H7 CS
183
210
241
258


32H8
185
198


33B5
177
199


33E4
184
211


34E3
190
212









Nucleic acids encoding certain antigen binding proteins, or portions thereof (e.g., full length antibody, heavy or light chain, variable domain, or CDRH1, CDRH2, CDRH3, CDRL1, CDRL2, or CDRL3) may be isolated from B-cells of mice that have been immunized with CGRP R or immunogenic components thereof, e.g., by immunizing with full-length CGRP R (comprising both CRLR and RAMP1), with the extracellular domain of CGRP R (comprising extracellular domains of CRLR and RAMP1), with whole cells expressing CGRP R, with membranes prepared from cells expressing CGRP R, with fusion proteins, e.g., Fc fusions, comprising CRLR, RAMP1 (or extracellular domains thereof) fused to Fc, and other methods known in the art, for example, as described in the Examples 1-3 herein. The nucleic acid may be isolated by conventional procedures such as polymerase chain reaction (PCR). Phage display is another example of a known technique whereby derivatives of antibodies and other antigen binding proteins may be prepared. In one approach, polypeptides that are components of an antigen binding protein of interest are expressed in any suitable recombinant expression system, and the expressed polypeptides are allowed to assemble to form antigen binding protein molecules.
The nucleic acids provided in Tables 7-9 are exemplary only. Due to the degeneracy of the genetic code, each of the polypeptide sequences listed in Tables 2-5 or otherwise depicted herein are also encoded by a large number of other nucleic acid sequences besides those provided. One of ordinary skill in the art will appreciate that the present application thus provides adequate written description and enablement for each degenerate nucleotide sequence encoding each antigen binding protein.
An aspect further provides nucleic acids that hybridize to other nucleic acids (e.g., nucleic acids comprising a nucleotide sequence listed in Table 7, Table 8, Table 9 and/or SEQ ID NOs:224-258) under particular hybridization conditions. Methods for hybridizing nucleic acids are well-known in the art. See, e.g., Current Protocols in Molecular Biology, John Wiley & Sons, N.Y. (1989), 6.3.1-6.3.6. As defined herein, a moderately stringent hybridization condition uses a prewashing solution containing 5× sodium chloride/sodium citrate (SSC), 0.5% SDS, 1.0 mM EDTA (pH 8.0), hybridization buffer of about 50% formamide, 6×SSC, and a hybridization temperature of 55° C. (or other similar hybridization solutions, such as one containing about 50% formamide, with a hybridization temperature of 42° C.), and washing conditions of 60° C., in 0.5×SSC, 0.1% SDS. A stringent hybridization condition hybridizes in 6×SSC at 45° C., followed by one or more washes in 0.1×SSC, 0.2% SDS at 68° C. Furthermore, one of skill in the art can manipulate the hybridization and/or washing conditions to increase or decrease the stringency of hybridization such that nucleic acids comprising nucleotide sequences that are at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 98% or 99% identical to each other typically remain hybridized to each other.
The basic parameters affecting the choice of hybridization conditions and guidance for devising suitable conditions are set forth by, for example, Sambrook, Fritsch, and Maniatis (2001, Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y., supra; and Current Protocols in Molecular Biology, 1995, Ausubel et al., eds., John Wiley & Sons, Inc., sections 2.10 and 6.3-6.4), and can be readily determined by those having ordinary skill in the art based on, e.g., the length and/or base composition of the nucleic acid.
Changes can be introduced by mutation into a nucleic acid, thereby leading to changes in the amino acid sequence of a polypeptide (e.g., an antibody or antibody derivative) that it encodes. Mutations can be introduced using any technique known in the art. In one embodiment, one or more particular amino acid residues are changed using, for example, a site-directed mutagenesis protocol. In another embodiment, one or more randomly selected residues is changed using, for example, a random mutagenesis protocol. However it is made, a mutant polypeptide can be expressed and screened for a desired property.
Mutations can be introduced into a nucleic acid without significantly altering the biological activity of a polypeptide that it encodes. For example, one can make nucleotide substitutions leading to amino acid substitutions at non-essential amino acid residues. Alternatively, one or more mutations can be introduced into a nucleic acid that selectively changes the biological activity of a polypeptide that it encodes. For example, the mutation can quantitatively or qualitatively change the biological activity. Examples of quantitative changes include increasing, reducing or eliminating the activity. Examples of qualitative changes include changing the antigen specificity of an antibody. In one embodiment, a nucleic acid encoding any antigen binding protein described herein can be mutated to alter the amino acid sequence using molecular biology techniques that are well-established in the art.
Another aspect provides nucleic acid molecules that are suitable for use as primers or hybridization probes for the detection of nucleic acid sequences. A nucleic acid molecule can comprise only a portion of a nucleic acid sequence encoding a full-length polypeptide, for example, a fragment that can be used as a probe or primer or a fragment encoding an active portion (e.g., a CGRP R binding portion) of a polypeptide.
Probes based on the sequence of a nucleic acid can be used to detect the nucleic acid or similar nucleic acids, for example, transcripts encoding a polypeptide. The probe can comprise a label group, e.g., a radioisotope, a fluorescent compound, an enzyme, or an enzyme co-factor. Such probes can be used to identify a cell that expresses the polypeptide.
Another aspect provides vectors comprising a nucleic acid encoding a polypeptide or a portion thereof (e.g., a fragment containing one or more CDRs or one or more variable region domains). Examples of vectors include, but are not limited to, plasmids, viral vectors, non-episomal mammalian vectors and expression vectors, for example, recombinant expression vectors. The recombinant expression vectors can comprise a nucleic acid in a form suitable for expression of the nucleic acid in a host cell. The recombinant expression vectors include one or more regulatory sequences, selected on the basis of the host cells to be used for expression, which is operably linked to the nucleic acid sequence to be expressed. Regulatory sequences include those that direct constitutive expression of a nucleotide sequence in many types of host cells (e.g., SV40 early gene enhancer, Rous sarcoma virus promoter and cytomegalovirus promoter), those that direct expression of the nucleotide sequence only in certain host cells (e.g., tissue-specific regulatory sequences, see, Voss et al., 1986, Trends Biochem. Sci. 11:287, Maniatis et al., 1987, Science 236:1237, incorporated by reference herein in their entireties), and those that direct inducible expression of a nucleotide sequence in response to particular treatment or condition (e.g., the metallothionin promoter in mammalian cells and the tet-responsive and/or streptomycin responsive promoter in both prokaryotic and eukaryotic systems (see, id.). It will be appreciated by those skilled in the art that the design of the expression vector can depend on such factors as the choice of the host cell to be transformed, the level of expression of protein desired, etc. The expression vectors can be introduced into host cells to thereby produce proteins or peptides, including fusion proteins or peptides, encoded by nucleic acids as described herein.
Another aspect provides host cells into which a recombinant expression vector has been introduced. A host cell can be any prokaryotic cell (for example, E. coli) or eukaryotic cell (for example, yeast, insect, or mammalian cells (e.g., CHO cells)). Vector DNA can be introduced into prokaryotic or eukaryotic cells via conventional transformation or transfection techniques. For stable transfection of mammalian cells, it is known that, depending upon the expression vector and transfection technique used, only a small fraction of cells may integrate the foreign DNA into their genome. In order to identify and select these integrants, a gene that encodes a selectable marker (e.g., for resistance to antibiotics) is generally introduced into the host cells along with the gene of interest. Preferred selectable markers include those which confer resistance to drugs, such as G418, hygromycin and methotrexate. Cells stably transfected with the introduced nucleic acid can be identified by drug selection (e.g., cells that have incorporated the selectable marker gene will survive, while the other cells die), among other methods.
Preparing of Antigen Binding Proteins
Non-human antibodies that are provided can be, for example, derived from any antibody-producing animal, such as mouse, rat, rabbit, goat, donkey, or non-human primate (such as monkey (e.g., cynomolgus or rhesus monkey) or ape (e.g., chimpanzee)). Non-human antibodies can be used, for instance, in in vitro cell culture and cell-culture based applications, or any other application where an immune response to the antibody does not occur or is insignificant, can be prevented, is not a concern, or is desired. In certain embodiments, the antibodies may be produced by immunizing animals using methods known in the art, as described above and/or in Examples 1-3 below. The examples describe the generation of anti CGRP R antibodies using three different immunogen preparations (i) whole cells expressing full-length versions of two major components of CGRP R-RAMP1 and CRLR; (ii) membrane extracts from such cells; and (iii) soluble CGRP R obtained by co-expressing and purifying the N-terminal extracellular domains of CRLR and RAMP1. The antibodies may be polyclonal, monoclonal, or may be synthesized in host cells by expressing recombinant DNA. Fully human antibodies may be prepared as described above by immunizing transgenic animals containing human immunoglobulin loci or by selecting a phage display library that is expressing a repertoire of human antibodies.
The monoclonal antibodies (mAbs) can be produced by a variety of techniques, including conventional monoclonal antibody methodology, e.g., the standard somatic cell hybridization technique of Kohler and Milstein, 1975, Nature 256:495. Alternatively, other techniques for producing monoclonal antibodies can be employed, for example, the viral or oncogenic transformation of B-lymphocytes. One suitable animal system for preparing hybridomas is the murine system, which is a very well established procedure. Immunization protocols and techniques for isolation of immunized splenocytes for fusion are known in the art and illustrative approaches are described in the Examples, below. For such procedures, B cells from immunized mice are typically fused with a suitable immortalized fusion partner, such as a murine myeloma cell line. If desired, rats or other mammals besides can be immunized instead of mice and B cells from such animals can be fused with the murine myeloma cell line to form hybridomas. Alternatively, a myeloma cell line from a source other than mouse may be used. Fusion procedures for making hybridomas also are well known.
The single chain antibodies that are provided may be formed by linking heavy and light chain variable domain (Fv region) fragments via an amino acid bridge (short peptide linker), resulting in a single polypeptide chain. Such single-chain Fvs (scFvs) may be prepared by fusing DNA encoding a peptide linker between DNAs encoding the two variable domain polypeptides (VL and VH). The resulting polypeptides can fold back on themselves to form antigen-binding monomers, or they can form multimers (e.g., dimers, trimers, or tetramers), depending on the length of a flexible linker between the two variable domains (Kortt et al., 1997, Prot. Eng. 10:423; Kortt et al., 2001, Biomol. Eng. 18:95-108). By combining different VL and VH-comprising polypeptides, one can form multimeric scFvs that bind to different epitopes (Kriangkum et al., 2001, Biomol. Eng. 18:31-40). Techniques developed for the production of single chain antibodies include those described in U.S. Pat. No. 4,946,778; Bird, 1988, Science 242:423; Huston et al., 1988, Proc. Natl. Acad. Sci. U.S.A. 85:5879; Ward et al., 1989, Nature 334:544, de Graaf et al., 2002, Methods Mol. Biol. 178:379-387. Single chain antibodies derived from antibodies provided herein include, but are not limited to scFvs comprising the variable domain combinations of the heavy and light chain variable regions depicted in Table 3, or combinations of light and heavy chain variable domains which include CDRs depicted in Tables 4A and 4B.
Antibodies provided herein that are of one subclass can be changed to antibodies from a different subclass using subclass switching methods. Thus, IgG antibodies may be derived from an IgM antibody, for example, and vice versa. Such techniques allow the preparation of new antibodies that possess the antigen binding properties of a given antibody (the parent antibody), but also exhibit biological properties associated with an antibody isotype or subclass different from that of the parent antibody. Recombinant DNA techniques may be employed. Cloned DNA encoding particular antibody polypeptides may be employed in such procedures, e.g., DNA encoding the constant domain of an antibody of the desired isotype. See, e.g., Lantto et al., 2002, Methods Mol. Biol. 178:303-316.
Accordingly, the antibodies that are provided include those comprising, for example, the variable domain combinations described, supra., having a desired isotype (for example, IgA, IgG1, IgG2, IgG3, IgG4, IgE, and IgD) as well as Fab or F(ab′)2 fragments thereof. Moreover, if an IgG4 is desired, it may also be desired to introduce a point mutation (CPSCP->CPPCP) in the hinge region as described in Bloom et al., 1997, Protein Science 6:407, incorporated by reference herein) to alleviate a tendency to form intra-H chain disulfide bonds that can lead to heterogeneity in the IgG4 antibodies.
Moreover, techniques for deriving antibodies having different properties (i.e., varying affinities for the antigen to which they bind) are also known. One such technique, referred to as chain shuffling, involves displaying immunoglobulin variable domain gene repertoires on the surface of filamentous bacteriophage, often referred to as phage display. Chain shuffling has been used to prepare high affinity antibodies to the hapten 2-phenyloxazol-5-one, as described by Marks et al., 1992, BioTechnology 10:779.
Conservative modifications may be made to the heavy and light chain variable regions described in Table 3, or the CDRs described in Tables 4A and 4B (and corresponding modifications to the encoding nucleic acids) to produce a CGRP R binding protein having certain desirable functional and biochemical characteristics. Methods for achieving such modifications are described above.
CGRP antigen binding proteins may be further modified in various ways. For example, if they are to be used for therapeutic purposes, they may be conjugated with polyethylene glycol (pegylated) to prolong the serum half-life or to enhance protein delivery. Alternatively, the V region of the subject antibodies or fragments thereof may be fused with the Fc region of a different antibody molecule. The Fc region used for this purpose may be modified so that it does not bind complement, thus reducing the likelihood of inducing cell lysis in the patient when the fusion protein is used as a therapeutic agent. In addition, the subject antibodies or functional fragments thereof may be conjugated with human serum albumin to enhance the serum half-life of the antibody or antigen binding fragment thereof. Another useful fusion partner for the antigen binding proteins or fragments thereof is transthyretin (TTR). TTR has the capacity to form a tetramer, thus an antibody-TTR fusion protein can form a multivalent antibody which may increase its binding avidity.
Alternatively, substantial modifications in the functional and/or biochemical characteristics of the antigen binding proteins described herein may be achieved by creating substitutions in the amino acid sequence of the heavy and light chains that differ significantly in their effect on maintaining (a) the structure of the molecular backbone in the area of the substitution, for example, as a sheet or helical conformation, (b) the charge or hydrophobicity of the molecule at the target site, or (c) the bulkiness of the side chain. A “conservative amino acid substitution” may involve a substitution of a native amino acid residue with a normative residue that has little or no effect on the polarity or charge of the amino acid residue at that position. See, Table 4, supra. Furthermore, any native residue in the polypeptide may also be substituted with alanine, as has been previously described for alanine scanning mutagenesis.
Amino acid substitutions (whether conservative or non-conservative) of the subject antibodies can be implemented by those skilled in the art by applying routine techniques. Amino acid substitutions can be used to identify important residues of the antibodies provided herein, or to increase or decrease the affinity of these antibodies for human CGRP R or for modifying the binding affinity of other antigen-binding proteins described herein.
Methods of Expressing Antigen Binding Proteins
Expression systems and constructs in the form of plasmids, expression vectors, transcription or expression cassettes that comprise at least one polynucleotide as described above are also provided herein, as well host cells comprising such expression systems or constructs.
The antigen binding proteins provided herein may be prepared by any of a number of conventional techniques. For example, CGRP R antigen binding proteins may be produced by recombinant expression systems, using any technique known in the art. See, e.g., Monoclonal Antibodies, Hybridomas: A New Dimension in Biological Analyses, Kennet et al. (eds.) Plenum Press, New York (1980); and Antibodies: A Laboratory Manual, Harlow and Lane (eds.), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y. (1988).
Antigen binding proteins can be expressed in hybridoma cell lines (e.g., in particular antibodies may be expressed in hybridomas) or in cell lines other than hybridomas. Expression constructs encoding the antibodies can be used to transform a mammalian, insect or microbial host cell. Transformation can be performed using any known method for introducing polynucleotides into a host cell, including, for example packaging the polynucleotide in a virus or bacteriophage and transducing a host cell with the construct by transfection procedures known in the art, as exemplified by U.S. Pat. Nos. 4,399,216; 4,912,040; 4,740,461; 4,959,455. The optimal transformation procedure used will depend upon which type of host cell is being transformed. Methods for introduction of heterologous polynucleotides into mammalian cells are well known in the art and include, but are not limited to, dextran-mediated transfection, calcium phosphate precipitation, polybrene mediated transfection, protoplast fusion, electroporation, encapsulation of the polynucleotide(s) in liposomes, mixing nucleic acid with positively-charged lipids, and direct microinjection of the DNA into nuclei.
Recombinant expression constructs typically comprise a nucleic acid molecule encoding a polypeptide comprising one or more of the following: one or more CDRs provided herein; a light chain constant region; a light chain variable region; a heavy chain constant region (e.g., CH1, CH2 and/or CH3); and/or another scaffold portion of a CGRP R antigen binding protein. These nucleic acid sequences are inserted into an appropriate expression vector using standard ligation techniques. In one embodiment, the heavy or light chain constant region is appended to the C-terminus of the anti-CGRP R-specific heavy or light chain variable region and is ligated into an expression vector. The vector is typically selected to be functional in the particular host cell employed (i.e., the vector is compatible with the host cell machinery, permitting amplification and/or expression of the gene can occur). In some embodiments, vectors are used that employ protein-fragment complementation assays using protein reporters, such as dihydrofolate reductase (see, for example, U.S. Pat. No. 6,270,964, which is hereby incorporated by reference). Suitable expression vectors can be purchased, for example, from Invitrogen Life Technologies or BD Biosciences (formerly “Clontech”). Other useful vectors for cloning and expressing the antibodies and fragments include those described in Bianchi and McGrew, 2003, Biotech. Biotechnol. Bioeng. 84:439-44, which is hereby incorporated by reference. Additional suitable expression vectors are discussed, for example, in Methods Enzymol., vol. 185 (D. V. Goeddel, ed.), 1990, New York: Academic Press.
Typically, expression vectors used in any of the host cells will contain sequences for plasmid maintenance and for cloning and expression of exogenous nucleotide sequences. Such sequences, collectively referred to as “flanking sequences” in certain embodiments will typically include one or more of the following nucleotide sequences: a promoter, one or more enhancer sequences, an origin of replication, a transcriptional termination sequence, a complete intron sequence containing a donor and acceptor splice site, a sequence encoding a leader sequence for polypeptide secretion, a ribosome binding site, a polyadenylation sequence, a polylinker region for inserting the nucleic acid encoding the polypeptide to be expressed, and a selectable marker element. Each of these sequences is discussed below.
Optionally, the vector may contain a “tag”-encoding sequence, i.e., an oligonucleotide molecule located at the 5′ or 3′ end of the CGRP R binding protein coding sequence; the oligonucleotide sequence encodes polyHis (such as hexaHis), or another “tag” such as FLAG®, HA (hemaglutinin influenza virus), or myc, for which commercially available antibodies exist. This tag is typically fused to the polypeptide upon expression of the polypeptide, and can serve as a means for affinity purification or detection of the CGRP R binding protein from the host cell. Affinity purification can be accomplished, for example, by column chromatography using antibodies against the tag as an affinity matrix. Optionally, the tag can subsequently be removed from the purified CGRP R binding protein by various means such as using certain peptidases for cleavage.
Flanking sequences may be homologous (i.e., from the same species and/or strain as the host cell), heterologous (i.e., from a species other than the host cell species or strain), hybrid (i.e., a combination of flanking sequences from more than one source), synthetic or native. As such, the source of a flanking sequence may be any prokaryotic or eukaryotic organism, any vertebrate or invertebrate organism, or any plant, provided that the flanking sequence is functional in, and can be activated by, the host cell machinery.
Flanking sequences useful in the vectors may be obtained by any of several methods well known in the art. Typically, flanking sequences useful herein will have been previously identified by mapping and/or by restriction endonuclease digestion and can thus be isolated from the proper tissue source using the appropriate restriction endonucleases. In some cases, the full nucleotide sequence of a flanking sequence may be known. Here, the flanking sequence may be synthesized using the methods described herein for nucleic acid synthesis or cloning.
Whether all or only a portion of the flanking sequence is known, it may be obtained using polymerase chain reaction (PCR) and/or by screening a genomic library with a suitable probe such as an oligonucleotide and/or flanking sequence fragment from the same or another species. Where the flanking sequence is not known, a fragment of DNA containing a flanking sequence may be isolated from a larger piece of DNA that may contain, for example, a coding sequence or even another gene or genes. Isolation may be accomplished by restriction endonuclease digestion to produce the proper DNA fragment followed by isolation using agarose gel purification, Qiagen® column chromatography (Chatsworth, Calif.), or other methods known to the skilled artisan. The selection of suitable enzymes to accomplish this purpose will be readily apparent to one of ordinary skill in the art.
An origin of replication is typically a part of those prokaryotic expression vectors purchased commercially, and the origin aids in the amplification of the vector in a host cell. If the vector of choice does not contain an origin of replication site, one may be chemically synthesized based on a known sequence, and ligated into the vector. For example, the origin of replication from the plasmid pBR322 (New England Biolabs, Beverly, Mass.) is suitable for most gram-negative bacteria, and various viral origins (e.g., SV40, polyoma, adenovirus, vesicular stomatitus virus (VSV), or papillomaviruses such as HPV or BPV) are useful for cloning vectors in mammalian cells. Generally, the origin of replication component is not needed for mammalian expression vectors (for example, the SV40 origin is often used only because it also contains the virus early promoter).
A transcription termination sequence is typically located 3′ to the end of a polypeptide coding region and serves to terminate transcription. Usually, a transcription termination sequence in prokaryotic cells is a G-C rich fragment followed by a poly-T sequence. While the sequence is easily cloned from a library or even purchased commercially as part of a vector, it can also be readily synthesized using methods for nucleic acid synthesis such as those described herein.
A selectable marker gene encodes a protein necessary for the survival and growth of a host cell grown in a selective culture medium. Typical selection marker genes encode proteins that (a) confer resistance to antibiotics or other toxins, e.g., ampicillin, tetracycline, or kanamycin for prokaryotic host cells; (b) complement auxotrophic deficiencies of the cell; or (c) supply critical nutrients not available from complex or defined media. Specific selectable markers are the kanamycin resistance gene, the ampicillin resistance gene, and the tetracycline resistance gene. Advantageously, a neomycin resistance gene may also be used for selection in both prokaryotic and eukaryotic host cells.
Other selectable genes may be used to amplify the gene that will be expressed. Amplification is the process wherein genes that are required for production of a protein critical for growth or cell survival are reiterated in tandem within the chromosomes of successive generations of recombinant cells. Examples of suitable selectable markers for mammalian cells include dihydrofolate reductase (DHFR) and promoterless thymidine kinase genes. Mammalian cell transformants are placed under selection pressure wherein only the transformants are uniquely adapted to survive by virtue of the selectable gene present in the vector. Selection pressure is imposed by culturing the transformed cells under conditions in which the concentration of selection agent in the medium is successively increased, thereby leading to the amplification of both the selectable gene and the DNA that encodes another gene, such as an antigen binding protein that binds to CGRP R. As a result, increased quantities of a polypeptide such as an antigen binding protein are synthesized from the amplified DNA.
A ribosome-binding site is usually necessary for translation initiation of mRNA and is characterized by a Shine-Dalgarno sequence (prokaryotes) or a Kozak sequence (eukaryotes). The element is typically located 3′ to the promoter and 5′ to the coding sequence of the polypeptide to be expressed.
In some cases, such as where glycosylation is desired in a eukaryotic host cell expression system, one may manipulate the various pre- or pro-sequences to improve glycosylation or yield. For example, one may alter the peptidase cleavage site of a particular signal peptide, or add prosequences, which also may affect glycosylation. The final protein product may have, in the −1 position (relative to the first amino acid of the mature protein), one or more additional amino acids incident to expression, which may not have been totally removed. For example, the final protein product may have one or two amino acid residues found in the peptidase cleavage site, attached to the amino-terminus. Alternatively, use of some enzyme cleavage sites may result in a slightly truncated form of the desired polypeptide, if the enzyme cuts at such area within the mature polypeptide.
Expression and cloning will typically contain a promoter that is recognized by the host organism and operably linked to the molecule encoding a CGRP R binding protein. Promoters are untranscribed sequences located upstream (i.e., 5′) to the start codon of a structural gene (generally within about 100 to 1000 bp) that control transcription of the structural gene. Promoters are conventionally grouped into one of two classes: inducible promoters and constitutive promoters. Inducible promoters initiate increased levels of transcription from DNA under their control in response to some change in culture conditions, such as the presence or absence of a nutrient or a change in temperature. Constitutive promoters, on the other hand, uniformly transcribe a gene to which they are operably linked, that is, with little or no control over gene expression. A large number of promoters, recognized by a variety of potential host cells, are well known. A suitable promoter is operably linked to the DNA encoding heavy chain or light chain comprising a CGRP R binding protein by removing the promoter from the source DNA by restriction enzyme digestion and inserting the desired promoter sequence into the vector.
Suitable promoters for use with yeast hosts are also well known in the art. Yeast enhancers are advantageously used with yeast promoters. Suitable promoters for use with mammalian host cells are well known and include, but are not limited to, those obtained from the genomes of viruses such as polyoma virus, fowlpox virus, adenovirus (such as Adenovirus 2), bovine papilloma virus, avian sarcoma virus, cytomegalovirus, retroviruses, hepatitis-B virus, and Simian Virus 40 (SV40). Other suitable mammalian promoters include heterologous mammalian promoters, for example, heat-shock promoters and the actin promoter.
Additional promoters which may be of interest include, but are not limited to: SV40 early promoter (Benoist and Chambon, 1981, Nature 290:304-310); CMV promoter (Thomsen et al., 1984, Proc. Natl. Acad. U.S.A. 81:659-663); the promoter contained in the 3′ long terminal repeat of Rous sarcoma virus (Yamamoto et al., 1980, Cell 22:787-797); herpes thymidine kinase promoter (Wagner et al., 1981, Proc. Natl. Acad. Sci. U.S.A. 78:1444-1445); promoter and regulatory sequences from the metallothionine gene (Prinster et al., 1982, Nature 296:39-42); and prokaryotic promoters such as the beta-lactamase promoter (VIIIa-Kamaroff et al., 1978, Proc. Natl. Acad. Sci. U.S.A. 75:3727-3731); or the tac promoter (DeBoer et al., 1983, Proc. Natl. Acad. Sci. U.S.A. 80:21-25). Also of interest are the following animal transcriptional control regions, which exhibit tissue specificity and have been utilized in transgenic animals: the elastase I gene control region that is active in pancreatic acinar cells (Swift et al., 1984, Cell 38:639-646; Ornitz et al., 1986, Cold Spring Harbor Symp. Quant. Biol. 50:399-409; MacDonald, 1987, Hepatology 7:425-515); the insulin gene control region that is active in pancreatic beta cells (Hanahan, 1985, Nature 315:115-122); the immunoglobulin gene control region that is active in lymphoid cells (Grosschedl et al., 1984, Cell 38:647-658; Adames et al., 1985, Nature 318:533-538; Alexander et al., 1987, Mol. Cell. Biol. 7:1436-1444); the mouse mammary tumor virus control region that is active in testicular, breast, lymphoid and mast cells (Leder et al., 1986, Cell 45:485-495); the albumin gene control region that is active in liver (Pinkert et al., 1987, Genes and Devel. 1:268-276); the alpha-feto-protein gene control region that is active in liver (Krumlauf et al., 1985, Mol. Cell. Biol. 5:1639-1648; Hammer et al., 1987, Science 253:53-58); the alpha 1-antitrypsin gene control region that is active in liver (Kelsey et al., 1987, Genes and Devel. 1:161-171); the beta-globin gene control region that is active in myeloid cells (Mogram et al., 1985, Nature 315:338-340; Kollias et al., 1986, Cell 46:89-94); the myelin basic protein gene control region that is active in oligodendrocyte cells in the brain (Readhead et al., 1987, Cell 48:703-712); the myosin light chain-2 gene control region that is active in skeletal muscle (Sani, 1985, Nature 314:283-286); and the gonadotropic releasing hormone gene control region that is active in the hypothalamus (Mason et al., 1986, Science 234:1372-1378).
An enhancer sequence may be inserted into the vector to increase transcription of DNA encoding light chain or heavy chain comprising a human CGRP R binding protein by higher eukaryotes. Enhancers are cis-acting elements of DNA, usually about 10-300 by in length, that act on the promoter to increase transcription. Enhancers are relatively orientation and position independent, having been found at positions both 5′ and 3′ to the transcription unit. Several enhancer sequences available from mammalian genes are known (e.g., globin, elastase, albumin, alpha-feto-protein and insulin). Typically, however, an enhancer from a virus is used. The SV40 enhancer, the cytomegalovirus early promoter enhancer, the polyoma enhancer, and adenovirus enhancers known in the art are exemplary enhancing elements for the activation of eukaryotic promoters. While an enhancer may be positioned in the vector either 5′ or 3′ to a coding sequence, it is typically located at a site 5′ from the promoter. A sequence encoding an appropriate native or heterologous signal sequence (leader sequence or signal peptide) can be incorporated into an expression vector, to promote extracellular secretion of the antibody. The choice of signal peptide or leader depends on the type of host cells in which the antibody is to be produced, and a heterologous signal sequence can replace the native signal sequence. Examples of signal peptides that are functional in mammalian host cells include the following: the signal sequence for interleukin-7 (IL-7) described in U.S. Pat. No. 4,965,195; the signal sequence for interleukin-2 receptor described in Cosman et al., 1984, Nature 312:768; the interleukin-4 receptor signal peptide described in EP Patent No. 0367 566; the type I interleukin-1 receptor signal peptide described in U.S. Pat. No. 4,968,607; the type II interleukin-1 receptor signal peptide described in EP Patent No. 0 460 846.
The expression vectors that are provided may be constructed from a starting vector such as a commercially available vector. Such vectors may or may not contain all of the desired flanking sequences. Where one or more of the flanking sequences described herein are not already present in the vector, they may be individually obtained and ligated into the vector. Methods used for obtaining each of the flanking sequences are well known to one skilled in the art.
After the vector has been constructed and a nucleic acid molecule encoding light chain, a heavy chain, or a light chain and a heavy chain comprising a CGRP R antigen binding sequence has been inserted into the proper site of the vector, the completed vector may be inserted into a suitable host cell for amplification and/or polypeptide expression. The transformation of an expression vector for an antigen-binding protein into a selected host cell may be accomplished by well known methods including transfection, infection, calcium phosphate co-precipitation, electroporation, microinjection, lipofection, DEAE-dextran mediated transfection, or other known techniques. The method selected will in part be a function of the type of host cell to be used. These methods and other suitable methods are well known to the skilled artisan, and are set forth, for example, in Sambrook et al., 2001, supra.
A host cell, when cultured under appropriate conditions, synthesizes an antigen binding protein that can subsequently be collected from the culture medium (if the host cell secretes it into the medium) or directly from the host cell producing it (if it is not secreted). The selection of an appropriate host cell will depend upon various factors, such as desired expression levels, polypeptide modifications that are desirable or necessary for activity (such as glycosylation or phosphorylation) and ease of folding into a biologically active molecule.
Mammalian cell lines available as hosts for expression are well known in the art and include, but are not limited to, immortalized cell lines available from the American Type Culture Collection (ATCC), including but not limited to Chinese hamster ovary (CHO) cells, HeLa cells, baby hamster kidney (BHK) cells, monkey kidney cells (COS), human hepatocellular carcinoma cells (e.g., Hep G2), and a number of other cell lines. In certain embodiments, cell lines may be selected through determining which cell lines have high expression levels and constitutively produce antigen binding proteins with CGRP R binding properties. In another embodiment, a cell line from the B cell lineage that does not make its own antibody but has a capacity to make and secrete a heterologous antibody can be selected.
Use of Human CGRP Antigen Binding Proteins for Diagnostic and Therapeutic Purposes
Antigen binding proteins are useful for detecting CGRP R in biological samples and identification of cells or tissues that produce CGRP R. For instance, the CGRP R antigen binding proteins can be used in diagnostic assays, e.g., binding assays to detect and/or quantify CGRP R expressed in a tissue or cell. Antigen binding proteins that specifically bind to CGRP R can also be used in treatment of diseases related to CGRP R in a patient in need thereof. In addition, CGRP R antigen binding proteins can be used to inhibit CGRP R from forming a complex with its ligand CGRP, thereby modulating the biological activity of CGRP R in a cell or tissue. Examples of activities that can be modulated include, but are not limited to, inhibiting vasodialation and/or decrease neurogenic inflammation. Antigen binding proteins that bind to CGRP R thus can modulate and/or block interaction with other binding compounds and as such may have therapeutic use in ameliorating diseases related to CGRP R.
Indications
A disease or condition associated with human CGRP R includes any disease or condition whose onset in a patient is caused by, at least in part, the interaction of CGRP R with its ligand, CGRP. The severity of the disease or condition can also be increased or decreased by the interaction of CGRP R with CGRP. Examples of diseases and conditions that can be treated with the antigen binding proteins described herein include headaches, such as cluster headaches, migraine, including migraine headaches, chronic pain, type II diabetes mellitus, inflammation, e.g., neurogenic inflammation, cardiovascular disorders, and hemodynamic derangement associated with endotoxemia and sepsis.
In particular, antigen binding proteins described herein can be used to treat migraine, either as an acute treatment commencing after a migraine attack has commenced, and/or as a prophylactic treatment administered, e.g., daily, weekly, biweekly, monthly, bimonthly, biannually, etc.) to prevent or reduce the frequency and/or severity of symptoms, e.g., pain symptoms, associated with migraine attacks.
Diagnostic Methods
The antigen binding proteins described herein can be used for diagnostic purposes to detect, diagnose, or monitor diseases and/or conditions associated with CGRP R. Also provided are methods for the detection of the presence of CGRP R in a sample using classical immunohistological methods known to those of skill in the art (e.g., Tijssen, 1993, Practice and Theory of Enzyme Immunoassays, Vol 15 (Eds R. H. Burdon and P. H. van Knippenberg, Elsevier, Amsterdam); Zola, 1987, Monoclonal Antibodies: A Manual of Techniques, pp. 147-158 (CRC Press, Inc.); Jalkanen et al., 1985, J. Cell. Biol. 101:976-985; Jalkanen et al., 1987, J. Cell Biol. 105:3087-3096). The detection of CGRP R can be performed in vivo or in vitro.
Diagnostic applications provided herein include use of the antigen binding proteins to detect expression of CGRP R and binding of the ligands to CGRP R. Examples of methods useful in the detection of the presence of CGRP R include immunoassays, such as the enzyme linked immunosorbent assay (ELISA) and the radioimmunoassay (RIA).
For diagnostic applications, the antigen binding protein typically will be labeled with a detectable labeling group. Suitable labeling groups include, but are not limited to, the following: radioisotopes or radionuclides (e.g. 3H, 14C, 15N, 35S, 90Y, 99Tc, 111In, 125I, 131I), fluorescent groups (e.g., FITC, rhodamine, lanthanide phosphors), enzymatic groups (e.g., horseradish peroxidase, β-galactosidase, luciferase, alkaline phosphatase), chemiluminescent groups, biotinyl groups, or predetermined polypeptide epitopes recognized by a secondary reporter (e.g., leucine zipper pair sequences, binding sites for secondary antibodies, metal binding domains, epitope tags). In some embodiments, the labeling group is coupled to the antigen binding protein via spacer arms of various lengths to reduce potential steric hindrance. Various methods for labeling proteins are known in the art and may be used.
In another aspect, an antigen binding protein can be used to identify a cell or cells that express CGRP R. In a specific embodiment, the antigen binding protein is labeled with a labeling group and the binding of the labeled antigen binding protein to CGRP R is detected. In a further specific embodiment, the binding of the antigen binding protein to CGRP R detected in vivo. In a further specific embodiment, the CGRP R antigen binding protein is isolated and measured using techniques known in the art. See, for example, Harlow and Lane, 1988, Antibodies: A Laboratory Manual, New York: Cold Spring Harbor (ed. 1991 and periodic supplements); John E. Coligan, ed., 1993, Current Protocols In Immunology New York: John Wiley & Sons.
Another aspect provides for detecting the presence of a test molecule that competes for binding to CGRP R with the antigen binding proteins provided. An example of one such assay would involve detecting the amount of free antigen binding protein in a solution containing an amount of CGRP R in the presence or absence of the test molecule. An increase in the amount of free antigen binding protein (i.e., the antigen binding protein not bound to CGRP R) would indicate that the test molecule is capable of competing for CGRP R binding with the antigen binding protein. In one embodiment, the antigen binding protein is labeled with a labeling group. Alternatively, the test molecule is labeled and the amount of free test molecule is monitored in the presence and absence of an antigen binding protein.
Methods of Treatment: Pharmaceutical Formulations, Routes of Administration
Methods of using the antigen binding proteins are also provided. In some methods, an antigen binding protein is provided to a patient. The antigen binding protein inhibits binding of CGRP to human CGRP R.
Pharmaceutical compositions that comprise a therapeutically effective amount of one or a plurality of the antigen binding proteins and a pharmaceutically acceptable diluent, carrier, solubilizer, emulsifier, preservative, and/or adjuvant are also provided. In addition, methods of treating a patient, e.g., for migraine, by administering such pharmaceutical composition are included. The term “patient” includes human patients.
Acceptable formulation materials are nontoxic to recipients at the dosages and concentrations employed. In specific embodiments, pharmaceutical compositions comprising a therapeutically effective amount of human CGRP R antigen binding proteins are provided.
In certain embodiments, acceptable formulation materials preferably are nontoxic to recipients at the dosages and concentrations employed. In certain embodiments, the pharmaceutical composition may contain formulation materials for modifying, maintaining or preserving, for example, the pH, osmolarity, viscosity, clarity, color, isotonicity, odor, sterility, stability, rate of dissolution or release, adsorption or penetration of the composition. In such embodiments, suitable formulation materials include, but are not limited to, amino acids (such as glycine, glutamine, asparagine, arginine or lysine); antimicrobials; antioxidants (such as ascorbic acid, sodium sulfite or sodium hydrogen-sulfite); buffers (such as borate, bicarbonate, Tris-HCl, citrates, phosphates or other organic acids); bulking agents (such as mannitol or glycine); chelating agents (such as ethylenediamine tetraacetic acid (EDTA)); complexing agents (such as caffeine, polyvinylpyrrolidone, beta-cyclodextrin or hydroxypropyl-beta-cyclodextrin); fillers; monosaccharides; disaccharides; and other carbohydrates (such as glucose, mannose or dextrins); proteins (such as serum albumin, gelatin or immunoglobulins); coloring, flavoring and diluting agents; emulsifying agents; hydrophilic polymers (such as polyvinylpyrrolidone); low molecular weight polypeptides; salt-forming counterions (such as sodium); preservatives (such as benzalkonium chloride, benzoic acid, salicylic acid, thimerosal, phenethyl alcohol, methylparaben, propylparaben, chlorhexidine, sorbic acid or hydrogen peroxide); solvents (such as glycerin, propylene glycol or polyethylene glycol); sugar alcohols (such as mannitol or sorbitol); suspending agents; surfactants or wetting agents (such as pluronics, PEG, sorbitan esters, polysorbates such as polysorbate 20, polysorbate, triton, tromethamine, lecithin, cholesterol, tyloxapal); stability enhancing agents (such as sucrose or sorbitol); tonicity enhancing agents (such as alkali metal halides, preferably sodium or potassium chloride, mannitol sorbitol); delivery vehicles; diluents; excipients and/or pharmaceutical adjuvants. See, REMINGTON'S PHARMACEUTICAL SCIENCES, 18′′ Edition, (A. R. Genrmo, ed.), 1990, Mack Publishing Company.
In certain embodiments, the optimal pharmaceutical composition will be determined by one skilled in the art depending upon, for example, the intended route of administration, delivery format and desired dosage. See, for example, REMINGTON'S PHARMACEUTICAL SCIENCES, supra. In certain embodiments, such compositions may influence the physical state, stability, rate of in vivo release and rate of in vivo clearance of the antigen binding proteins disclosed. In certain embodiments, the primary vehicle or carrier in a pharmaceutical composition may be either aqueous or non-aqueous in nature. For example, a suitable vehicle or carrier may be water for injection, physiological saline solution or artificial cerebrospinal fluid, possibly supplemented with other materials common in compositions for parenteral administration. Neutral buffered saline or saline mixed with serum albumin are further exemplary vehicles. In specific embodiments, pharmaceutical compositions comprise Tris buffer of about pH 7.0-8.5, or acetate buffer of about pH 4.0-5.5, and may further include sorbitol or a suitable substitute. In certain embodiments, human CGRP R antigen binding protein compositions may be prepared for storage by mixing the selected composition having the desired degree of purity with optional formulation agents (REMINGTON'S PHARMACEUTICAL SCIENCES, supra) in the form of a lyophilized cake or an aqueous solution. Further, in certain embodiments, the human CGRP R antigen binding protein may be formulated as a lyophilizate using appropriate excipients such as sucrose.
The pharmaceutical compositions can be selected for parenteral delivery. Alternatively, the compositions may be selected for inhalation or for delivery through the digestive tract, such as orally. Preparation of such pharmaceutically acceptable compositions is within the skill of the art.
The formulation components are present preferably in concentrations that are acceptable to the site of administration. In certain embodiments, buffers are used to maintain the composition at physiological pH or at a slightly lower pH, typically within a pH range of from about 5 to about 8.
When parenteral administration is contemplated, the therapeutic compositions may be provided in the form of a pyrogen-free, parenterally acceptable aqueous solution comprising the desired human CGRP R binding protein in a pharmaceutically acceptable vehicle. A particularly suitable vehicle for parenteral injection is sterile distilled water in which the human CGRP R antigen binding protein is formulated as a sterile, isotonic solution, properly preserved. In certain embodiments, the preparation can involve the formulation of the desired molecule with an agent, such as injectable microspheres, bio-erodible particles, polymeric compounds (such as polylactic acid or polyglycolic acid), beads or liposomes, that may provide controlled or sustained release of the product which can be delivered via depot injection. In certain embodiments, hyaluronic acid may also be used, having the effect of promoting sustained duration in the circulation. In certain embodiments, implantable drug delivery devices may be used to introduce the desired antigen binding protein.
Certain pharmaceutical compositions are formulated for inhalation. In some embodiments, human CGRP R antigen binding proteins are formulated as a dry, inhalable powder. In specific embodiments, human CGRP R antigen binding protein inhalation solutions may also be formulated with a propellant for aerosol delivery. In certain embodiments, solutions may be nebulized. Pulmonary administration and formulation methods therefore are further described in International Patent Application No. PCT/US94/001875, which is incorporated by reference and describes pulmonary delivery of chemically modified proteins. Some formulations can be administered orally. Human CGRP R antigen binding proteins that are administered in this fashion can be formulated with or without carriers customarily used in the compounding of solid dosage forms such as tablets and capsules. In certain embodiments, a capsule may be designed to release the active portion of the formulation at the point in the gastrointestinal tract when bioavailability is maximized and pre-systemic degradation is minimized. Additional agents can be included to facilitate absorption of the human CGRP R antigen binding protein. Diluents, flavorings, low melting point waxes, vegetable oils, lubricants, suspending agents, tablet disintegrating agents, and binders may also be employed.
Some pharmaceutical compositions comprise an effective quantity of one or a plurality of human CGRP R antigen binding proteins in a mixture with non-toxic excipients that are suitable for the manufacture of tablets. By dissolving the tablets in sterile water, or another appropriate vehicle, solutions may be prepared in unit-dose form. Suitable excipients include, but are not limited to, inert diluents, such as calcium carbonate, sodium carbonate or bicarbonate, lactose, or calcium phosphate; or binding agents, such as starch, gelatin, or acacia; or lubricating agents such as magnesium stearate, stearic acid, or talc.
Additional pharmaceutical compositions will be evident to those skilled in the art, including formulations involving human CGRP R antigen binding proteins in sustained- or controlled-delivery formulations. Techniques for formulating a variety of other sustained- or controlled-delivery means, such as liposome carriers, bio-erodible microparticles or porous beads and depot injections, are also known to those skilled in the art. See, for example, International Patent Application No. PCT/US93/00829, which is incorporated by reference and describes controlled release of porous polymeric microparticles for delivery of pharmaceutical compositions. Sustained-release preparations may include semipermeable polymer matrices in the form of shaped articles, e.g., films, or microcapsules. Sustained release matrices may include polyesters, hydrogels, polylactides (as disclosed in U.S. Pat. No. 3,773,919 and European Patent Application Publication No. EP 058481, each of which is incorporated by reference), copolymers of L-glutamic acid and gamma ethyl-L-glutamate (Sidman et al., 1983, Biopolymers 2:547-556), poly (2-hydroxyethyl-inethacrylate) (Langer et al., 1981, J. Biomed. Mater. Res. 15:167-277 and Langer, 1982, Chem. Tech. 12:98-105), ethylene vinyl acetate (Langer et al., 1981, supra) or poly-D(−)-3-hydroxybutyric acid (European Patent Application Publication No. EP 133,988). Sustained release compositions may also include liposomes that can be prepared by any of several methods known in the art. See, e.g., Eppstein et al., 1985, Proc. Natl. Acad. Sci. U.S.A. 82:3688-3692; European Patent Application Publication Nos. EP 036,676; EP 088,046 and EP 143,949, incorporated by reference.
Pharmaceutical compositions used for in vivo administration are typically provided as sterile preparations. Sterilization can be accomplished by filtration through sterile filtration membranes. When the composition is lyophilized, sterilization using this method may be conducted either prior to or following lyophilization and reconstitution. Compositions for parenteral administration can be stored in lyophilized form or in a solution. Parenteral compositions generally are placed into a container having a sterile access port, for example, an intravenous solution bag or vial having a stopper pierceable by a hypodermic injection needle.
In certain embodiments, cells expressing a recombinant antigen binding protein as disclosed herein is encapsulated for delivery (see, Invest. Opthalmol Vis Sci 43:3292-3298, 2002 and Proc. Natl. Acad. Sciences 103:3896-3901, 2006).
In certain formulations, an antigen binding protein has a concentration of at least 10 mg/ml, 20 mg/ml, 30 mg/ml, 40 mg/ml, 50 mg/ml, 60 mg/ml, 70 mg/ml, 80 mg/ml, 90 mg/ml, 100 mg/ml or 150 mg/ml. Some formulations contain a buffer, sucrose and polysorbate. An example of a formulation is one containing 50-100 mg/ml of antigen binding protein, 5-20 mM sodium acetate, 5-10% w/v sucrose, and 0.002-0.008% w/v polysorbate. Certain, formulations, for instance, contain 65-75 mg/ml of an antigen binding protein in 9-11 mM sodium acetate buffer, 8-10% w/v sucrose, and 0.005-0.006% w/v polysorbate. The pH of certain such formulations is in the range of 4.5-6. Other formulations have a pH of 5.0-5.5 (e.g., pH of 5.0, 5.2 or 5.4).
Once the pharmaceutical composition has been formulated, it may be stored in sterile vials as a solution, suspension, gel, emulsion, solid, crystal, or as a dehydrated or lyophilized powder. Such formulations may be stored either in a ready-to-use form or in a form (e.g., lyophilized) that is reconstituted prior to administration. Kits for producing a single-dose administration unit are also provided. Certain kits contain a first container having a dried protein and a second container having an aqueous formulation. In certain embodiments, kits containing single and multi-chambered pre-filled syringes (e.g., liquid syringes and lyosyringes) are provided. The therapeutically effective amount of a human CGRP R antigen binding protein-containing pharmaceutical composition to be employed will depend, for example, upon the therapeutic context and objectives. One skilled in the art will appreciate that the appropriate dosage levels for treatment will vary depending, in part, upon the molecule delivered, the indication for which the human CGRP R antigen binding protein is being used, the route of administration, and the size (body weight, body surface or organ size) and/or condition (the age and general health) of the patient. In certain embodiments, the clinician may titer the dosage and modify the route of administration to obtain the optimal therapeutic effect.
A typical dosage may range from about 1 μg/kg to up to about 30 mg/kg or more, depending on the factors mentioned above. In specific embodiments, the dosage may range from 10 μg/kg up to about 30 mg/kg, optionally from 0.1 mg/kg up to about 30 mg/kg, alternatively from 0.3 mg/kg up to about 20 mg/kg. In some applications, the dosage is from 0.5 mg/kg to 20 mg/kg. In some instances, an antigen binding protein is dosed at 0.3 mg/kg, 0.5 mg/kg, 1 mg/kg, 3 mg/kg, 10 mg/kg, or 20 mg/kg. The dosage schedule in some treatment regimes is at a dose of 0.3 mg/kg qW, 0.5 mg/kg qW, 1 mg/kg qW, 3 mg/kg qW, 10 mg/kg qW, or 20 mg/kg qW.
Dosing frequency will depend upon the pharmacokinetic parameters of the particular human CGRP R antigen binding protein in the formulation used. Typically, a clinician administers the composition until a dosage is reached that achieves the desired effect. The composition may therefore be administered as a single dose, or as two or more doses (which may or may not contain the same amount of the desired molecule) over time, or as a continuous infusion via an implantation device or catheter. Appropriate dosages may be ascertained through use of appropriate dose-response data. In certain embodiments, the antigen binding proteins can be administered to patients throughout an extended time period. Chronic administration of an antigen binding protein minimizes the adverse immune or allergic response commonly associated with antigen binding proteins that are not fully human, for example an antibody raised against a human antigen in a non-human animal, for example, a non-fully human antibody or non-human antibody produced in a non-human species.
The route of administration of the pharmaceutical composition is in accord with known methods, e.g., orally, through injection by intravenous, intraperitoneal, intracerebral (intra-parenchymal), intracerebroventricular, intramuscular, intra-ocular, intraarterial, intraportal, or intralesional routes; by sustained release systems or by implantation devices. In certain embodiments, the compositions may be administered by bolus injection or continuously by infusion, or by implantation device.
The composition also may be administered locally via implantation of a membrane, sponge or another appropriate material onto which the desired molecule has been absorbed or encapsulated. In certain embodiments, where an implantation device is used, the device may be implanted into any suitable tissue or organ, and delivery of the desired molecule may be via diffusion, timed-release bolus, or continuous administration.
It also may be desirable to use human CGRP R antigen binding protein pharmaceutical compositions ex vivo. In such instances, cells, tissues or organs that have been removed from the patient are exposed to human CGRP R antigen binding protein pharmaceutical compositions after which the cells, tissues and/or organs are subsequently implanted back into the patient.
In particular, human CGRP R antigen binding proteins can be delivered by implanting certain cells that have been genetically engineered, using methods such as those described herein, to express and secrete the polypeptide. In certain embodiments, such cells may be animal or human cells, and may be autologous, heterologous, or xenogeneic. In certain embodiments, the cells may be immortalized. In other embodiments, in order to decrease the chance of an immunological response, the cells may be encapsulated to avoid infiltration of surrounding tissues. In further embodiments, the encapsulation materials are typically biocompatible, semi-permeable polymeric enclosures or membranes that allow the release of the protein product(s) but prevent the destruction of the cells by the patient's immune system or by other detrimental factors from the surrounding tissues.
The following examples, including the experiments conducted and the results achieved, are provided for illustrative purposes only and are not to be construed as limiting the scope of the appended claims.
EXAMPLE 1
Generation of CGRP Receptor as Antigens
A. Molecular Cloning of Human CRLR and RAMP1
Human CRLR cDNA (GenBank Accession No. U17473; SEQ ID NO:1) and RAMP1 cDNA (GenBank Accession No. AJ001014; SEQ ID NO:3) were cloned into the mammalian cell expression vectors pcDNA3.1-Zeo and pcDNA3.1-Hyg (Invitrogen, Carlsbad, Calif.), respectively, for transfections of HEK 293EBNA cells (Invitrogen) as described below. The hCRLR cDNA and hRAMP1 cDNA were also cloned into the pDSRα24 vector (Kim, H. Y. et al. J. Inv. Derm. Symp. Proc. (2007) 12: 48-49) for transfections of AM-1 CHO cells (U.S. Pat. No. 6,210,924).
B. Stably-Transfected Cell Lines
1. Stable Expression of Human CGRP R in 293EBNA Cells
HEK 293EBNA cells (available from ATCC or Invitrogen) were seeded at a density of 1.5×106 cells per 100 mm dish. After 24 hours, the cells were co-transfected with 6 μg linearized DNAs of huRAMP1/pcDNA3.1-Hyg and huCRLR/pcDNA3.1-Zeo with FuGene6 (Invitrogen, Carlsbad, Calif.) following instructions supplied by Invitrogen. After two days, the cells were trypsinized and subcultured into growth medium containing 400 μg/ml hygromycin+250 μg/ml zeocin. After two weeks, the resulting drug resistant colonies were trypsinized and combined into pools. The pools were subjected to four rounds of FACS sorting an Alexa 647-labeled CGRP8-37peptide analog (described below). The highest 5% of expressing cells were collected at each round.
2. Stable Expression of Human CGRP R in AM-1 CHO Cells
AM-1 CHO cells (a serum-free growth media-adapted variant from the CHO DHFR-deficient cell line described in Urlaub and Chasin, Proc. Natl. Acad. Sci. 77, 4216 (1980), were seeded at 1.5×106 cells per 100 mm dish. After 24 hours, the cells were co-transfected with linearized 4 μg DNAs each of pDSRα24/huRAMP1 and pDSRα24/huCRLR with FuGene6 (Invitrogen, Carlsbad, Calif.) following instructions supplied by Invitrogen. The transfected cells were trypsinized 2 days after transfection and seeded into CHO DHFR selective growth medium containing 10% dialyzed FBS and without hypoxanthine/thymidine supplement. After 2 weeks, the resulting transfected colonies were trypsinized and pooled. The pools were subjected to FACS sorting analysis.
3. Stable Expression of Human Adrenomedullin (AM1) in HEK 293EBNA Cells
293EBNA cells were seeded in 100 mm dishes at 1.5×106 cells/dish in DMEM (high glucose)+5% FBS+1% MEM non-essential amino acids+1% sodium pyruvate. The following day the cells were co-transfected using FuGENE 6 transfection reagent (Roche) with pcDNA3.1/zeocin/huCRLR plus pcDNA3.1/hygromycin/huRAMP2. Both DNA constructs were linearized with FspI. After 48 hours the cells were subcultured into 100 mm dishes at 3 cell densities (8×105, 3.2×105, and 8×104 cells/dish) in growth medium containing 200 μg/ml zeocin. The medium was changed twice weekly. After one week the plates were fed with medium containing 200 μg/ml hygromycin+200 μg/ml zeocin. After two weeks, 96 colonies were isolated with cloning rings. The remaining colonies were collected into a single pool culture. The clones and pools were assayed for their response to stimulation by receptor agonist or forskolin. Several clones showed a good response, and one was selected for use in subsequent experiments.
4. Stable Expression of Cyno CGRP R in HEK 293EBNA Cells
293EBNA cells were seeded in 100 mm dishes at 1.5×106 cells/dish in DMEM (high glucose)+5% FBS+1% MEM non-essential amino acids+1% sodium pyruvate. The following day the cells were co-transfected using FuGENE 6 with pcDNA3.1/zeocin/cynoCRLR plus pcDNA3.1/hygromycin/cynoRAMP1. Both constructs were linearized with FspI. After 48 hours the cells were subcultured into growth medium containing 200 μg/ml zeocin+400 μl/ml hygromycin at dilutions of 1:20, 1:40, 1:100, and 1:200. The medium was changed twice weekly. After two weeks, 96 transfected colonies were isolated using cloning rings. The clones were assayed for their response to stimulation by CGRP ligand. Several clones showed similar high levels of response and one was selected for use in subsequent experiments.
C. Isolation of High-expressing CGRP Receptor Cells
A CGRP8-37peptide analog was synthesized (Midwest Bio-Tech Inc. Fishers, Ind.) with the sequence below:

    
    
        Ac-WVTHRLAGLLSRSGGVVRCNFVPTDVGPFAF-NH2 (SEQ ID NO:9)
    
    


The peptide was labeled with Alexa 647-NHS following the manufacturer's instructions (Molecular Probes, Inc. Cat A 2006). The Alexa 647-labeled CGRP8-37 showed specific staining of CGRP receptor transfected cells and not the non-transfected parental cells and was used as the FACS reagent.
The huCGRP receptor-transfected 293EBNA and AM-1 CHO cell pools (generated as above) were sorted repeatedly up to four times pools using with Alexa 647-labeled CGRP8-37 peptide. High expressing cells were collected at each sort, expanded and after the final sorting frozen into vials. The AM-1 CHO/huCGRP R cells were used for immunization as described below, and the 293EBNA/huCGRP R cells were used for titering mouse sera after immunization and in binding screens of the hybridoma supernatants.
D. Generation of Soluble CGRP Receptor
Soluble CGRP receptor polypeptides containing the N-terminal extracellular domains (ECDs) of human CRLR (SEQ ID NO:6) and human RAMP1 (SEQ ID NO:8) were generated by transiently co-transfecting 293 6E cells (Durocher, et al., Nucleic Acids Res. 30:E9 (2002)) with vectors containing the corresponding cDNAs (SEQ ID NO:5 or SEQ ID NO:7) as described below. Commonly used tags (polyHis, Flag, HA and/or Fc) were employed to facilitate secretion and/or subsequent purification.
A soluble heterodimeric CGRP R ECD fused to Fc was prepared by PCR cloning with the appropriate primers into the transient expression vector pTT5 (Durocher, et al., supra). The CRLR N-terminal ECD-Fc consisted of the N-terminal extracellular domain of CRLR (SEQ ID NO:6) fused to human IgG1 Fc. The RAMP1 ECD-Fc contains the extracellular domain of RAMP1 (SEQ ID NO:8) fused to human IgG1 Fc. In both cases, there was a linker consisting of five consecutive glycines between the ECD domain and Fc.
The soluble heterodimeric CGRP receptor was expressed by co-transfecting the two constructs as follows. 293-6E cells at 1×106 cells/ml in shake flasks were transfected with 0.5 mg/L DNA (hCRLR N-ter ECD-Fc/pTT5 and huRAMP1 ECD-Fc/pTT5) with 3 ml PEI/mg DNA in FreeStyle 293 media (Invitrogen). Cells were grown in suspension in FreeStyle 293 expression medium supplemented with 0.1% Pluronic F68 and 50 μg/ml Geneticin for 7 days and harvested for purification.
Purifications from conditioned media (“CM”) were performed by buffering the CM with the addition of 50 mM Tris, 400 mM sodium citrate, and adjusting the pH to 8.5. The buffered CM was then passed over a Protein A affinity column equilibrated in 50 mM Tris, 400 mM sodium citrate and pH adjusted to pH 8.5. The Protein A column was washed with PBS and the Fc fusion protein eluted with 0.1 N HOAc. The eluted peak contained both CRLR and RAMP1 components when tested by western blot using individual antibodies specific to either CRLR or RAMP1. Further LC-MS and N-terminal sequencing confirmed the presence of both CRLR:RAMP1 heterodimer and CRLR:CRLR homodimer in approximately (2:3) ratio. This “soluble CGRP receptor” was shown to compete in Alexa647 labeled CGRP8-37binding to CGRP receptor expressing recombinant cells in the FMAT analysis, although it failed to bind CGRP ligand as determined using Biacore testing. The material was used as an immunogen as described in Example, despite, inter alia, its heterogeneity and lack of CGRP ligand binding.
E. Generation of Membrane Extracts from Recombinant CGRP Receptor Expressing Cells
Membrane extracts were prepared from CGRP receptor expressing cells using a method described by Bossé, R. et al., (Journal of Biomolecular Screening, 3(4): 285-292 (1998)). Briefly, approximately 5 grams of cell paste were pelleted in 50 ml of PBS at 3,000 rpm for 10 min at 4° C. and re-suspended in 30 ml of cold lysis buffer (25 mM HEPES, pH 7.4, 3 mM MgCl2 plus one Roche protease inhibitor cocktail tablet/50 mL). The lysate was homogenized with Glas-Col (Teflon-glass homogenizer) with  ̃20 strokes at 5,000 rpm and spun in a JA21 rotor at 20,000 rpm for 15 min at 4° C. This process was repeated once more and the final pellet was re-suspended in  ̃1-5 ml ‘final pellet’ buffer (25 mM HEPES, pH 7.4, 3 mM MgCl2, 10% (w/v) sucrose plus one Roche protease inhibitor cocktail tablet/50 mL). The membrane extracts were sheared by passing through 16 G and 25 G needles 2-3 times. Total membrane protein concentration was determined with a Microplate BCA Protein Assay (Pierce).
EXAMPLE 2
Generation of Antibodies to CGRP Receptor
A. Immunization
Immunizations were conducted using the following forms of CGRP receptor antigens, prepared as described in Example 1:
(i) AM-1 CHO transfectants expressing full length human CRLR and RAMP1 at the cell surface, obtained by co-transfecting CHO cells with human full length CRLR cDNA (SEQ ID NO:1) encoding a polypeptide having the sequence SEQ ID NO:2, and RAMP1 cDNA (SEQ ID NO:3) encoding a polypeptide having the sequence SEQ ID NO:4
(ii) membrane extract from the cells described in (i) above; and
(iii) soluble CGRP receptor obtained by co-expressing and purifying the N-terminal ECD of CRLR (SEQ ID NO:6) and the extracellular domain (ECD) of RAMP1 (SEQ ID NO:8) as described in Example 1.
XENOMOUSE animals were immunized with purified soluble CGRP receptor protein and purified CGRP R membranes prepared from AM-1 CHO cells stably expressing CGRP R in the same manner using doses of 10 μg/mouse and 150 μg/mouse respectively. CGRP membranes were prepared using methods described above.
Subsequent boosts were administered at doses of ten μg/mouse of soluble CGRP R or 75 μg of purified CGRP R membranes. XENOMOUSE animals were also immunized with CGRP receptor-expressing cells using doses of 3.4×106 CGRP R transfected cells/mouse and subsequent boosts were of 1.7×106 CGRP R transfected cells/mouse. Injection sites used were combinations of subcutaneous base-of-tail and intraperitoneal. Immunizations were performed in accordance with methods disclosed in U.S. Pat. No. 7,064,244, filed Feb. 19, 2002, the disclosure of which is hereby incorporated by reference. Adjuvants TiterMax Gold (Sigma; cat. #T2684), Alum (E.M. Sergent Pulp and Chemical Co., Clifton, N.J., cat. #1452-250) were prepared according to manufacturers' instructions and mixed in a 1:1 ratio of adjuvant emulsion to antigen solution.
Sera were collected 4-6 weeks after the first injection and specific titers were determined by FACs staining of recombinant CGRP receptor-expressing 293EBNA cells.
Mice were immunized with either cells/membranes expressing full length CGRP R cells or soluble CGRP R extracellular domain, with a range of 11-17 immunizations over a period of approximately one to three and one-half months. Mice with the highest sera titer were identified and prepared for hybridoma generation. The immunizations were performed in groups of multiple mice, typically ten. Popliteal and inguinal lymph nodes and spleen tissues were typically pooled from each group for generating fusions.
B. Preparation of Monoclonal Antibodies
Animals exhibiting suitable titers were identified, and lymphocytes were obtained from draining lymph nodes and, if necessary, pooled for each cohort. Lymphocytes were dissociated from lymphoid tissue in a suitable medium (for example, Dulbecco's Modified Eagle Medium; DMEM; obtainable from Invitrogen, Carlsbad, Calif.) to release the cells from the tissues, and suspended in DMEM. B cells were selected and/or expanded using a suitable method, and fused with suitable fusion partner, for example, nonsecretory myeloma P3X63Ag8.653 cells (American Type Culture Collection CRL 1580; Kearney et al, J. Immunol. 123, 1979, 1548-1550).
Lymphocytes were mixed with fusion partner cells at a ratio of 1:4. The cell mixture was gently pelleted by centrifugation at 400×g for 4 minutes, the supernatant decanted, and the cell mixture gently mixed by using a 1 ml pipette. Fusion was induced with PEG/DMSO (polyethylene glycol/dimethyl sulfoxide; obtained from Sigma-Aldrich, St. Louis Mo.; 1 ml per million of lymphocytes). PEG/DMSO was slowly added with gentle agitation over one minute followed, by one minute of mixing. IDMEM (DMEM without glutamine; 2 ml per million of B cells), was then added over 2 minutes with gentle agitation, followed by additional IDMEM (8 ml per million B-cells) which was added over 3 minutes.
The fused cells were gently pelleted (400×g 6 minutes) and resuspended in 20 ml Selection media (for example, DMEM containing Azaserine and Hypoxanthine [HA] and other supplemental materials as necessary) per million B-cells. Cells were incubated for 20-30 minutes at 37° C. and then resuspended in 200 ml Selection media and cultured for three to four days in T175 flasks prior to 96-well plating.
Cells were distributed into 96-well plates using standard techniques to maximize clonality of the resulting colonies. After several days of culture, the hybridoma supernatants were collected and subjected to screening assays as detailed in the examples below, including confirmation of binding to human CGRP receptor, identification of blocking antibodies by a ligand binding competition assay and evaluation of cross-reactivity with other receptors related to CGRP receptor (for example, human Adrenomedullin receptor). Positive cells were further selected and subjected to standard cloning and subcloning techniques. Clonal lines were expanded in vitro, and the secreted human antibodies obtained for analysis.
C. Sequence Analysis of Selected Monoclonal Antibodies
Selected subcloned monoclonal antibodies were sequenced using standard RT-PCR methods. Table 2A shows the amino acid sequences of the light chains of exemplary antibodies disclosed herein. Table 2B shows the amino acid sequences of the heavy chains of exemplary antibodies disclosed herein.
Amino acid sequences corresponding to CDR regions of sequenced antibodies were aligned and the alignments were used to group the clones by similarity.
Sequence alignments of light chain CDRs from clones having kappa light chains, and certain corresponding consensus sequences, are shown in FIGS. 3A and 3B.
Sequence alignments of light chain CDRs from clones having lambda light chains, and certain corresponding consensus sequences, are shown in FIG. 4.
Sequence alignments of heavy chain CDRs of exemplary antibodies disclosed herein, and certain corresponding consensus sequences, are shown in FIGS. 5A, 5B, 5C, 5D and 5E.
Certain consensus sequences of exemplary heavy chain CDRs disclosed herein are shown in FIG. 5F.
EXAMPLE 3
Identification of CGRP Receptor Specific Antibodies
A. Selection of CGRP Receptor Specific Binding Antibodies by FMAT
After 14 days of culture, hybridoma supernatants were screened for CGRP R-specific monoclonal antibodies by Fluorometric Microvolume Assay Technology (FMAT) (Applied Biosystems, Foster City, Calif.). The supernatants were screened against either the AM-1 CHO huCGRP R cells or recombinant HEK 293 cells that were transfected with human CGRP R and counter-screened against parental HEK293 cells (prepared as described in Example 1).
Briefly, the cells in Freestyle media (Invitrogen, Carlsbad, Calif.) were seeded into 384-well FMAT plates in a volume of 50 μL/well at a density of approximately 4000 cells/well for the stable transfectants, and at a density of approximately 16,000 cells/well for the parental cells, and cells were incubated overnight at 37° C. Then, 10 μL/well of supernatant was added and plates were incubated for approximately one hour at 4° C., after which 10 μL/well of anti-human IgG-Cy5 secondary antibody (Jackson Immunoresearch, West Grove, Pa.) was added at a concentration of 2.8 μg/ml (400 ng/ml final concentration). Plates were then incubated for one hour at 4° C., and fluorescence was read using an FMAT macroconfocal scanner (Applied Biosystems, Foster City, Calif.).
For counter screens, the parental AM-1 CHO cells or HEK 293 cells were seeded similarly and supernatants screened by FMAT on these cells in parallel to differentiate and eliminate hybridomas binding to cellular proteins, but not to the CGRP receptor.
B. Identification of Blocking Antibodies by Ligand Binding Competition Assay through FMAT
A ligand binding competition method was developed to identify antibodies (in the hybridoma supernatants) that bind CGRP receptor and block CGRP ligand binding. 384-wells plates (Corning Costar, Cat:#3712) were prepared with 5,000 AM-1 huCGRP R Pool 2 cells and 20,000 untransfected CHO-S cells in each well. 20 μl of anti-CGRP R hybridoma supernatant were added to each well, and the plates were incubated for 1 hr at room temperature. 10 μl of 2.8 μg/ml Alexa647-CGRP8-37 peptide were then added to each well and the plates were incubated for a further 3 hours at room temperature. The amount of Alexa647-CGRP8-37 bound to the cells was assayed on a FMAT 8200 Cellular Detection System (Applied Biosystems). Output data were both a numerical FL1 value of signal intensity (higher FL1 values indicate higher signal intensity) and also an image of the cells.
The experiments included negative control hybridoma supernatants. The average FL1 value observed in these negative control experiments was adopted as the maximum possible signal for the assay. Experimental supernatants were compared to this maximum signal and a percent inhibition was calculated for each well (% Inhibition=(1−(FL1 of the anti-CGRP R hybridoma supernatant/Maximum FL1 signal)).
An overview of the data is shown in FIG. 6. In this experiment, 1092 anti-CGRP R supernatants were tested using the receptor ligand assay. The data were rank ordered using the average percent inhibition. Ninety supernatants had >25% average inhibition, 31 of these were >50% and 7 were >70% average inhibition.
An abbreviated data set is shown in Table 10, below. Sample ID Nos. 1-5 illustrate examples of anti-CGRP R hybridoma supernatants which inhibited the binding Alexa647-CGRP8-37 peptide to CGRP receptor and Sample ID Nos 536-540 illustrate examples of anti-CGRP R hybridoma supernatants which did not inhibit the binding of the Alexa647-CGRP8-37 peptide to the CGRP receptor.







TABLE 10







Exemplary data from FMAT ligand binding competition assay










Expt. #1
Expt. #2













Sample


%


%


ID
FL1
Image
Inhibition
FL1
Image
Inhibition
















1
2264
 
84% 
2585
 
88%


2
3007
 
77% 
2804
 
85%


3
3460
 
72% 
2929
 
84%


4
3650
 
70% 
3294
 
79%


5
3764
 
69% 
3246
 
80%


536
10412
 
0%
11142
 
−17%  


537
10413
 
0%
9388
 
 5%


538
10414
 
0%
9420
 
 4%


539
10415
 
0%
10943
 
−14%  


540
10415
 
0%
10561
 
−10%  









Based on the binding competition assays, approximately 30 supernatants were selected for further characterization.
EXAMPLE 4
Activity of CGRP Receptor Specific Blocking Monoclonal Antibodies in a cAMP Functional Assay
A. CGRP Receptor Antibody Activity.
Selected CGRP receptor antibodies were screened in an in vitro CGRP receptor mediated cAMP assay to determine intrinsic potency. The in vitro cAMP assay employed a human neuroblastoma-derived cell line (SK-N-MC; Spengler, et al., (1973) In Vitro 8: 410) obtained from ATCC (ATCC Number HTB-10; “HTB-10 cells”). HTB-10 cells express CRLR and RAMP1, which form CGRP receptor (L. M. McLatchie et al, 1998). A 293EBNA cell line expressing recombinant cynomolgus CGRP R was generated as described in Example 1, and a rat L6 cell line expressing rat CGRP receptor was obtained from the ATCC(CRL-1458).
The LANCE cAMP assay kit (PerkinElmer, Boston, Mass.) was used in the screening. The assays were performed in white 96-well plates in a total volume of 60 μL. Briefly, on the day of the assay, the frozen HTB-10 cells were thawed at 37° C., cells were washed once with assay buffer and 12 μL of cell suspension containing 10000 cells mixed with Alexa-labeled anti-cAMP antibody was added into 96 half-area white plates. After adding 12 μL CGRP receptor antibody, the mixture was incubated for 30 min at room temperature. Then 12 μL CGRP receptor agonist human ∝-CGRP (1 nM final concentration) was added and further incubated for 15 min at room temperature. After human α-CGRP stimulation, 24 μL of detection mix was added and incubated for 60 minutes at room temperature and the plates were red on EnVision instrument (PerkinElmer, Boston, Mass.) at Em665 nM. Data were processed and analyzed by Prizm (GraphPad Software Inc.) or ActivityBase (IDBS).
FIG. 7A shows exemplary data obtained as described above using the hCGRP receptor-expressing cell line HTB-10 for three antibodies—3C8, 13H2 and 1E11. The data are plotted as percentage over control (“POC”) as a function of antibody (3C8, 13H2 or 1E11) concentration, and are fitted with standard nonlinear regression curves to yield the IC50 values shown at the bottom of the figure.
B. Lack of Antibody Activity in Related Receptors.
Cells expressing related receptors AM1 (HEK 293 cells expressing hCRLR+hRAMP2; D. R. Poyner, et al, Pharmacological review, 54:233-246, 2002), AM2 (CHO cells expressing hCRLR+hRAMP3; D. R. Poyner, et al, Pharmacological review, 54:233-246, 2002) or human amylin AMY1 receptor (MCF-7 cells hCTR+hRAMP1; Wen-Ji Chen, et al, Molecular pharmacology, 52: 1164-1175, 1997) were used to determine the selectivity of the tested antibodies. The AM1-expressing HEK 293 cell line was generated as described in Example 1, above. The AM2-expressing CHO cell line was purchased from EuroScreen (now PerkinElmer, Inc.); and the human amylin AMY1 receptor-expressing MCF-7 cell line (Zimmermann, et al, Journal of Endocrinology, 423-431, 1997), was obtained from the ATCC (HTB-22). Exemplary results, plotted as described above, are shown in FIGS. 7B (hAM1-HEK cells), 7C (hAM2-CHO cells) and 7D (hAMY-MCF-7 cells). Note that none of the tested antibodies had significant inhibitory activity against hAM1, hAM2 or hAMY1 receptors over the range tested.
Similar experiments were performed using recombinant HEK cells expressing cynomolgus CGRP receptors and rat L6 cells expressing rat CGRP receptor (ATCC). Data from these studies, as well as additional IC50 data obtained as described in part A of this Example, are shown in the “cAMP” columns in Table 11, below. Note that the IC50 values against the human and cyno CGRP receptors are in the nanomolar range, whereas activities against rat CGRP receptor, and human AM1, AM2 and AMY1 receptors, as well as MCF7 cells expressing calcitonin (data not shown) are all greater than 1 micromolar. The difference in IC50 between human CGRP receptor and human AM1, AM2, amylin and calcitonin receptors illustrates the high selectivity of the these antibodies for the CGRP receptor over related receptors formed in part of the same receptor components. IC50 obtained using human and cynomolgus CGRP receptors were similar, whereas the tested antibodies did not appear to cross-react with rat CGRP receptor.










TABLE 11









cAMP assay
125I assay















hCGRP
Cyno CGRP
Rat CGRP
hAmylin
hAM1
hAM2
Human



R IC50
R IC50
R IC50
1 IC50
IC50
IC50
CGRP Ki


Clone
(nM)
(nM)
(nM)
(nM)
(nM)
(nM)
(nM)

















01E11.2
1.77
2.79
>1000
>1000
>1000
>1000
0.030


01H7.2
3.27
4.74
>1000
>1000
>1000
>1000
0.079


02A10.1
11.81
17.6
>1000
>1000
>1000
>1000
0.291


02E7.2
6.30
5.51
>1000
>1000
>1000
>1000
0.117


03A5.1
9.89
28.9
>1000
>1000
>1000
>1000
0.093


03B6.2
2.74
2.22
>1000
>1000
>1000
>1000
0.033


03C8.2
6.66
5.32
>1000
>1000
>1000
>1000
0.044


03H8.2
10.84
10.6
>1000
>1000
>1000
>1000
0.111


04E4.2
2.38
3.52
>1000
>1000
>1000
>1000
0.015


04H6.1
3.78
5.59
>1000
>1000
>1000
>1000
0.052


05F5.1
4.79
4.78
>1000
>1000
>1000
>1000
0.147


07B2.1
8.96
27.7
>1000
>1000
>1000
>1000
0.116


07B3.1
10.2
14.1
>1000
>1000
>1000
>1000
0.127


07F1.1
8.92
10.5
>1000
>1000
>1000
>1000
0.140


08B11.2
10.7
17.0
>1000
>1000
>1000
>1000
0.118


09D4.2
1.40
2.46
>1000
>1000
>1000
>1000
0.023


09F5.2
3.06
4.44
>1000
>1000
>1000
>1000
0.043


10E4.2
3.08
3.23
>1000
>1000
>1000
>1000
0.100


11A9.1
16.1
47.8
>1000
>1000
>1000
>1000
0.157


11D11.1
4.93
3.85
>1000
>1000
>1000
>1000
0.044


11H9.1
4.56
5.07
>1000
>1000
>1000
>1000
0.057


12E8.2
2.93
4.13
>1000
>1000
>1000
>1000
0.097


12G8.2
2.14
2.74
>1000
>1000
>1000
>1000
0.017


13D6.2
8.23
11.8
>1000
>1000
>1000
>1000
0.055


13E2.2
18.3
49.2
>1000
>1000
>1000
>1000
0.128


13H2.2
1.95
8.41
>1000
>1000
>1000
>1000
0.033


32H7.1G

1.93

>1000
>1000
>1000









EXAMPLE 5
Radioligand CGRP Binding Assay for Ki Determination Receptor Blocking Antibodies
125I-labeled CGRP (Amersham Biosciences, Piscataway, N.J.) and cell membranes from HTB-10 cells (PerkinElmer Inc., Waltham, Mass.) were used for radioligand binding experiment in the presence of various concentrations of the test antibodies to determine the corresponding Ki values. The CGRP binding assay was set up at room temperature in 96-well plates containing: 110 μl binding buffer (20 mM Tris-HCl, pH7.5, 5.0 mM MgSO4, 0.2% BSA (Sigma), 1 tablet of CompleteTM/50 ml buffer (a protease inhibitor)); 20 μl test compound (10×); 20 μl 125I-hαCGRP (Amersham Biosciences; 10×); and 50 μl human neuroblastoma cell (HTB-10) membrane suspension (10 μg per well, PerkinElmer). The plates were incubated at room temperature for 2 hours with shaking at 60 rpm, and then the contents of each well were filtered over 0.5% polyethyleneimine (PEI)-treated (for at least one hour) GF/C 96-well filter plates. The GF/C filter plates were washed six times with ice-cold 50 mM Tris, pH 7.5 and dried in an oven at 55° C. for 1 hour. The bottoms of the GF/C plates were then sealed. 40 μl MicroscintTM 20 was added to each well, the tops of the GF/C plates were sealed with TopSealTM-A (a press-on adhesive sealing film), and the GF/C plates were counted with TopCount NXT (Packard). The data were analyzed using Prizm (GraphPad Software Inc.)
Exemplary data and Ki values obtained using antibodies 3C8, 12H2 and 1E11 are shown in FIG. 8.
The right-most column in Table 11, above, lists the Ki values of the indicated mAbs in the radiolabeled 125I-CGRP competition binding assay to HTB-10 cell membranes. The data demonstrate that the CGRP receptor antibodies were highly competitive (all sub-nanomolar range) against CGRP binding.
EXAMPLE 6
FACS Binding Assay for Kd Determination of CGRP Receptor Blocking Antibodies
The affinities of anti-CGRP R mAbs for CGRP receptors expressed on cells were determined using a FACS method. Briefly, AM-1 CHO huCGRP R-expressing cells, prepared as described above, were plated in 96-well plates at densities of 16,000 or 160,000 cells per well in DMEM medium containing 10% FBS, NEAA, PS, L Glut, NaPyr and 0.05% sodium azide. CGRP receptor antibodies were titrated in the same medium from 50 nM to 1 μM and incubated with cells. After an overnight incubation at 4° C. in a total volume of 120 μl, on a plate shaker, the cells were washed 2× with PBS+2% FBS, centrifuging and discarding supernatant each time. 100 μl/well of G anti-Hu Fc Cy5 (5 μg/mL; Jackson ImmunoResearch Laboratories Inc., West Grove, Pa., USA) containing 7AAD (5 μl/well) was then added and incubated at 4° C. for 40 min. The cells were washed 2× with PBS+2% FBS, centrifuging and discarding the supernatant each time. 100 μl PBS+2% FBS buffer was then added and analyzed by FACS to determined the binding geomean. The Kd was calculated using KinExA software by taking the negative geomean at each antibody concentration as the amount of free Ab present Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013. The data obtained at the two different cell concentrations were analyzed by n-curve analysis to determine the Kd and the 95% confidence interval as described in Rathanaswami, et al., Biochemical and Biophysical Research Communications 334 (2005) 1004-1013.
Exemplary data with corresponding curve fits are shown in FIG. 10 for antibody 12G8.2. The data of eight blocking antibodies generated in support of the present disclosure are shown in Table 12. One of the antibodies (3B6) was analyzed on two different days. The ratio of 0.9 obtained for the experiment with 16K cells indicates that the antigen concentration is predicted as 0.9× the Kd and hence the curve obtained by this experiment is a Kd controlled curve. It can be appreciated that the Kd values obtained in this manner were in the low single-digit nanomolar range for all tested antibodies.









TABLE 12









N curve analysis













Kd
Kd Low
Kd High

Ratio



(nM)
(nM)
(nM)
% error
16K


















1H7
1.9
1.5
3
3.8
0.001



2E7
1.5
0.7
3.4
6.3
0.19



3B6 (a)
1.7
1.1
2.7
5.3
0.060



3B6 (b)
2.0
1.6
2.6
3.2
0.21



4E4
1.3
0.9
2.05
3.9
0.16



4H6
2.4
1.78
4.35
3.8
0.070



9D4
2.5
1.8
4.39
4.3
0.060



12E8
2.3
1.58
3.36
3.7
0.55



12G8
1.4
0.92
2.21
3.6
0.94










EXAMPLE 7
Binning of CGRP Receptor Blocking Antibodies by Bicore Binding Competition
Biacore analyses (Karlsson, R. et al., Methods; A Companion to Methods in Enzymology, 6: 99-110 (1994) were carried out as follows. Immobilization of anti-CGRP receptor antibodies to the CM5 sensor chip surface was performed according to manufacturer's instructions, using a continuous flow of 10 mM HEPES, 0.15M NaCl, 3.4 mM EDTA, 0.005% P-20, pH 7.4 (HBS-EP buffer). Carboxyl groups on the sensor chip surfaces were activated by injecting 60 μL of a mixture containing 0.2 M N-ethyl-N′ (dimethylaminopropyl)carbodiimide (EDC) and 0.05 M N-hydroxysuccinimide (NHS). Specific surfaces were obtained by injecting 180 μl of anti-CGRP receptor antibody diluted in 10 mM acetate, pH 4.0 at a concentration of 30 μg/mL. Excess reactive groups on the surfaces were deactivated by injecting 60 μL of 1 M ethanolamine. Final immobilized levels for the individual antibodies were as follows:














Antibody
Resonance Units (RU)



















11D11
~5,900



3B6
~7,200



4H6
~8,000



12G8
~7,800



9F5
~6,600



34E3
~3,700










A blank, mock-coupled reference surface was also prepared on the sensor chip. Soluble huCGRP receptor at a concentration of 100 nM was captured on sensor chips having one of the six immobilized antibodies referenced above (11D11, 3B6, 4H6, 12G8, 9F5 or 34E3). Each of the 20 test anti-CGRP R antibodies was then injected over the captured huCGRP receptor. If the injected antibody recognized a distinct epitope relative to that recognized by the immobilized antibody, a second binding event would be observed. If the antibodies recognize the same or very similar epitopes, only the binding of the huCGRP receptor would be observed.

Exemplary data obtained using a sensor chip coated with immobilized antibody 3B6 are shown in FIG. 9A. The four traces are data obtained using antibodies 1E11, 4E4, 2E7 and 12G8 in the injected solution. Events during the experiment are represented by letters, with “A” corresponding to injection of huCGRP R-Fc, “B” corresponding to end of the huCGRP R-Fc injection, “C” corresponding to injection of second mAb, and “D” corresponding to end second mAb injection and start of the buffer wash. Note that there is no indication of any binding signal from any of the injected antibody on the immobilized antibody surface, indicating that the four injected antibodies apparently recognize the same or very similar epitope(s) as the immobilized antibody. Essentially the same results were observed with all tested blocking antibodies washed over each the five immobilized neutralizing antibody surfaces, indicating that all tested anti-huCGRP receptor blocking antibodies recognize the same or very similar and strongly overlapping epitope(s).
In contrast, as shown in part in FIGS. 9B, 9C and 9D, the four tested non-blocking, CGRP receptor specific antibodies 32H8, 33B5, 33E4 and 34E3 failed to compete with 11D11 (data not shown), 3B6 (FIG. 9B), 12G8 (FIG. 9C) and 9F5 (data not shown) although 34E3 was able to compete with 4H6 (FIG. 9D) and weakly with 32H7 (data not shown). 32H8 failed to compete with 3B6, 4H6, 12G8, 9F5 or the non-blocking antibody 34E3, but 33B5 and 33E4 could compete with the non-blocking antibody 34E3. The data for all blocking and non-blocking antibodies are summarized in Table 13, below. “NB” indicates no binding; “+” indicates significant binding; and “Weak” indicates weak binding.









TABLE 13









Immobilized Antibodies













Ab in Solution
11D11
3B6
4H6
12G8
9F5
34E3





1E11
NB
NB
NB
NB
NB
+


1H7
NB
NB
NB
NB
NB
+


2E7
NB
NB
NB
NB
NB
+


3B6
NB
NB
NB
NB
NB
+


3C8
NB
NB
NB
NB
NB
+


4E4
NB
NB
NB
NB
NB
+


4H6
NB
NB
NB
NB
NB
NB


5F5
NB
NB
NB
NB
NB
+


9D4
NB
NB
NB
NB
NB
+


9F5
NB
NB
NB
NB
NB
+


10E4
NB
NB
NB
NB
NB
+


11D11
NB
NB
NB
NB
NB
+


11H9
NB
NB
NB
NB
NB
+


12E8
NB
NB
NB
NB
NB
+


12G8
NB
NB
NB
NB
NB
+


13H2
NB
NB
NB
NB
NB
+


32H7
NB
NB
NB
NB
NB
Weak


32H8
+
+
+
+
+
+


33B5
+
+
+
+
+
NB


33E4
+
+
+
+
+
NB









As can be appreciated from the data, all the tested blocking or neutralizing antibodies bind to the same region as the five immobilized blocking antibodies; i.e., all of the tested neutralizing antibodies bind the same region of the CGRP R molecule. On the other hand, the non-blocking antibodies did not generally compete with the immobilized blocking antibodies, indicating that the non-blocking antibodies primarily bind a different region of CGRP R.
EXAMPLE 8
Binding of CGRP Receptor Antibodies to Soluble CGRP Receptor in Western Blot
Three representative CGRP receptor blocking antibodies were tested using Western blots for binding to a soluble CGRP receptor-muFc fusion protein.
100 ng of purified CGRP R-muFc (produced and purified as described above for the CGRP R-huFc except the mouse Fc was used and the linker between RAMP1 or CRLR ECD and muFc was changed to “GGGGGVDGGGGGV” (SEQ ID NO:213)) was diluted in PBS with PAGE sample buffer with (reduced) or without (non-reduced) beta-mercaptoethanol (βME) at 13.3% concentration. The sample containing βME was then boiled for 4 min. Reduced and non-reduced samples were loaded onto separate 4-20% Tris-glycine gels (Invitrogen) with alternating lanes of CGRP R-Fc protein and molecular weight markers (Invitrogen). Gels were electroblotted onto 0.2 μm nitrocellulose filters (Invitrogen). The blots were washed with Tris-buffered saline +1% Tween 20 (TBST) and then blocked with TBST+5% powered dry milk for 30 min. The blots were cut into strips along the molecular weight marker lanes. One strip each with reduced and non-reduced CGRP R-muFc were incubated with purified huCGRP R antibodies 4E4, 9F5, or 3B6 (1:500 dilution in TBST+5% milk), goat anti-huRAMP1 N-20 (1:500; Santa Cruz Biotechnology, Inc), rabbit anti-mouse IgG-Fc-HRP (1:10,000) (Pierce), or goat anti-human IgG-Fc-HRP (1:10,000) (Pierce). Blots were incubated with the antibodies for one hour followed by 3×10 min washes with TBST+1% milk. The blots treated with the huCGRP R antibodies were then incubated with goat anti-mouse IgG-Fc-HRP (1:10,000 in TBST+1% milk) and the blots treated with anti-huRAMP1 (N-20 anti-RAMP1 goat polyclonal antibody, Santa Cruz Biotech, CA) were incubated with rabbit anti-goat IgG-Fc-HRP (1:10,000) for 20 min. Blots were washed 3×15 min with TBST. The huCGRP R and anti-huRAMP1 antibody blots were treated with Pierce Supersignal West Pico Detection reagent, and the anti-mouse and anti-human IgG-Fc-HRP blots were treated with Pierce standard Detection Reagent (1 min.). Blots were then exposed with Kodak Biomax MS X-ray film.
All of the three CGRP receptor antibodies, 4E4, 9F5 and 3B6 were able to detect the soluble CGRP R-muFc (containing RAMP1-ECD and CRLR ECD) under non-reduced condition but not under reduced condition indicating that the binding epitope of these CGRP R antibodies was conformational and sensitive to the disulfide linkages (3 pairs in RAMP1-ECD and 3 pairs in CRLR N-ter ECD). In contrast, the commercial anti-RAMP1 antibody N-20 (Santa Cruz Biotech) bound RAMP 1 under both reduced and no reduced conditions indicating that the binding site for N-20 antibody was primarily linear and not sensitive to disulfide linkages.
EXAMPLE 9
Binding of CGRP Receptor Blocking Antibodies to Chimeric Receptors
CGRP receptors formed of either native RAMP1 with chimeric CRLR, or native CRLR with chimeric RAMP1, were used to identify CGRP receptor sequences involved in antibody binding. Since all of the human CGRP receptor blocking antibodies tested failed to show functional activity to the rat CGRP receptor, the chimeric components contained regions of rat sequence in a human sequence background. The following chimeras were generated for binding analysis by FACS:
RAMP1 chimera#1 (Q28 to A34); SEQ ID NO:217
Amino acid residues Q28 to A34 in the human RAMP1 were replaced with the corresponding sequences from rat RAMP1. This stretch included five amino acid residues that are different between human and rat RAMP1.
RAMP1 chimera#2 (Q43 to E53); SEQ ID NO:218
Amino acid residues Q43 to E53 in the human RAMP1 were replaced with the corresponding sequences from rat RAMP1. This stretch included six amino acid residues that are different between human and rat RAMP1.
RAMP1 chimera#3 (R67 to E78); SEQ ID NO:219
Amino acid residues R67 to E78 in the human RAMP1 were replaced with the corresponding sequences from rat RAMP1. This stretch included seven amino acid residues that are different between human and rat RAMP1.
CRLR chimera#1 (L24 to Q33); SEQ ID NO:223
Amino acid residues L24 to Q33 in the human CRLR were replaced with the corresponding sequences from rat CRLR. This stretch included eight amino acid residues that are different between human and rat CRLR.
FIG. 11 shows an alignment of RAMP1 amino acid sequences from cynomolgus monkey (SEQ ID NO:215), human (SEQ ID NO:4), rat (SEQ ID NO:214) and rhesus monkey (SEQ ID NO:216), together with sequences of RAMP1 chimera #1 (SEQ ID NO:217), chimera #2 (SEQ ID NO:218) and chimera #3 (SEQ ID NO:219). FIGS. 12A and 12B show an alignment of CRLR amino acid sequences from human (SEQ ID NO:2), cynomolgus monkey (SEQ ID NO:221), rhesus monkey (SEQ ID NO:222), rat (SEQ ID NO:220) and, as well as the amino acid sequence of CRLR chimera #1 (SEQ ID NO:223).
293-6E cells were transiently transfected with CGRP R chimera DNA constructs (CRLR wt+RAMP1 Q28-A34; CRLR wt+RAMP1 Q43-E53; CRLR wt+RAMP1 R67-E78; CRLR L24-Q33+RAMP wt; CRLR wt+RAMP1 wt; pTT5 vector control). Cells were harvested after 72 hr, washed with PBS+0.5% BSA, and counted. Each transfected cell line was resuspended at a dilution of 5×105 cells per 100 μl PBS/BSA. 100 μl of cell suspension was aliquot per well in a 96-well round-bottom plate (Falcon). The cells were pelleted at 1200 rpm for 5 min. The supernatant was removed and replaced with 100 μl containing 0.5 μg purified huCGRP R antibodies 1H7, 2E7, 3B6, 9F5, 4H6, 12G8, 3C8, 10E4, 11D11, 32H8, or 33B5. Control wells were treated with anti-DNP huIgG2 (0.5 μg), Alexa647-CGRP peptide (0.5 μg), or PBS/BSA alone. Cells were incubated on ice for 1 hr. and then washed twice with PBS/BSA. The cells were resuspended in 100 μl/well PBS/BSA containing anti-hug-Fc-FITC (0.5 μg) (except for Alexa647-CGRP treated cells). Cells were incubated on ice in the dark for 1 hr. and then washed twice with PBS/BSA. Cells were resuspended in 200 μl PBS/BSA and analyzed using a FACS Calibur.
Ten representative blocking antibodies (3B6, 9F5, 4H6, 12G8, 3C8, 10E4, 32H7, 4E4, 11D11 and 1H7) and two non-blocking antibody (32H8 and 33B5) were tested. Representative data (9F5 antibody) are shown in FIGS. 13A, 13B and 13C. FIG. 13A shows binding to the wild-type CGRP receptor; FIG. 13B show binding to CGRP receptors containing the CRLR L24-Q33 chimera, and FIG. 13C show binding to CGRP receptors containing the RAMP1 Q28-A34 chimera. The FACS analysis showed that all 12 antibodies bind wild type human CGRP receptor control as expected. All 12 antibodies showed significantly reduced binding to any of the three RAMP1 chimera RAMP1 (Q28-A34), (Q43-E53) and (R67-E78). This could result from (1) the expression level of the chimera receptor was much lower, (2) the RAMP1 chimera impaired the folding with human CRLR and altered the conformation of the receptor complex, and/or (3) these three selected regions on RAMP1 are directly involved in the binding of these antibodies to CGRP receptor.
When the FACS tracing were gated to include only the very small “expressing” cell populations, the non-blocking antibodies 33B5 and 32H8 appeared to consistently bind less well (lower Geo Means) to the RAMP1 Q43-E53 chimera as compared to the blocking antibodies, suggesting binding to the RAMP1 Q43-E53 region may be more important for the non-blocking antibodies. On the other hand, 33B5 and 32H8 consistently bound better to the RAMP1 R67-E78 chimera than the blocking antibodies, suggesting the RAMP1 R67-E78 sequence may be more important for the blocking antibodies.
All CGRP receptor antibodies tested bound reasonably well to the CRLR chimera (L24-Q33), suggesting this site is not essential for binding of blocking antibodies.
In summary, the data show that three discontinuous regions on RAMP1—(Q28-A34), (Q43-E53) and (R67-E78)—could be involved in CGRP receptor antibody binding, with (R67-E78) more important to the blocking antibodies. The N-terminal sequences (L24-Q33) of CRLR did not appear to be critically involved in binding for the CGRP receptor antibodies as analyzed by this method. This approach does not rule out additional binding sites that share identical or similar sequences between human and rat CGRP receptors which were not targeted in the analysis.
EXAMPLE 10
Identification of Human CGRP R Epitopes for Anti-CGRP R Neutralizing Antibodies by Protease Protection Assay
The CRLR portion in the mature form of the CRLR-Fc fusion molecule (with signal peptide removed; disclosed herein as SEQ ID NO:10) contains 116 amino acids (preceding the glycine linker) and has three large loop structures created by formation of three disulfide bonds. The three disulfide bonds in CRLR are Cys1 at sequence position 26 (all CRLR sequence positions listed in this paragraph are with respect to the mature sequence presented as SEQ ID NO:10) linked to Cys3 at sequence position 52 (referred to as CRLR C1-C3), Cys2 at sequence position 43 linked to Cys5 at sequence position 83 (referred to as CRLR C2-C5), Cys4 at sequence position 66 linked to Cys6 at sequence position 105 (referred to as CRLR C4-C6). RAMP1 portion in mature form of RAMP1-Fc fusion molecule contains 91 amino acids (SEQ ID NO:11) preceding the glycine linker, which also forms three intramolecular disulfide bonds. The three disulfide bonds in RAMP1 are Cys1 at sequence position 1 (all RAMP1 sequence positions listed in this paragraph are with respect to the mature sequence presented as SEQ ID NO:11) linked to Cys5 at sequence position 56 (referred to as RAMP1 C1-C5), Cys2 at sequence position 14 linked to Cys4 at sequence position 46 (referred to as RAMP1 C2-C4), Cys3 at sequence position 31 linked to Cys6 at sequence position 78 (referred to as RAMP1 C3-C6).
Regions of the human CGRP receptor protein bound by anti-CGRP neutralizing monoclonal antibodies were identified by fragmenting h CGRP R into peptides with specific proteases, and determining the sequence of the resulting h CGRP R peptides (i.e., both disulfide- and non-disulfide-containing peptide fragments for CRLR and RAMP1 portions). A protease protection assay was then performed to determine the proteolytic digestion of hCGRP R in the presence of binding monoclonal antibodies. The general principle of this assay is that binding of a mAb to CGRP R can result in protection of certain specific protease cleavage sites and this information can be used to determine the region or portion of CGRP R where the mAb binds to.
Briefly, the peptide digests were subjected to HPLC peptide mapping; the individual peaks were collected, and the peptides identified and mapped by on-line electrospray ionization LC-MS (ESI-LC-MS) analyses and/or by N-terminal sequencing. All HPLC analyses for these studies were performed using a narrow bore reverse-phase C18 column (2.1 mm i.d.×15 cm length; Zorbax 300SB, 5 μm, Agilent Technologies) for off-line analysis and using a capillary reverse phase C18 column (0.5 mm i.d.×25 cm Vydac C18 MS, 5 μm; The Separation Group) for LC-MS. HPLC peptide mapping was performed with a linear gradient from 0.05% trifluoroacetic acid (mobile phase A) to 90% acetonitrile in 0.05% trifluoroacetic acid. Columns were developed over 90 minutes at a flow rate of 0.25 ml/min for narrow bore HPLC for off-line or on-line LC-MS analyses, and 0.018 ml/min for capillary HPLC for on-line LC-MS analyses.
Mature form human CGRP R was digested with AspN (which cleaves after aspartic acid and some glutamic acid residues at the amino end) by incubating about 100 μg of CGRP R at 1.0 mg/ml in 0.1M sodium phosphate (pH 6.5) for 20 hrs at 37° C. with 2 μg of AspN.
HPLC chromatography of the AspN digests generated a peptide profile as shown in FIG. 14 (each sample 30 μg injected), chromatogram labeled A for CGRP R alone (concentration 1 mg/ml), while a control digestion with a similar amount of CGRP R neutralizing antibody, clone 12G8, shows that the antibody is essentially resistant to AspN endoproteinase (chromatogram labeled B; CGRP R:antibody ratio, 100:2; 100:7; 100:20, weight by weight, respectively). Sequence analyses were conducted by on-line LC-MS/MS and by Edman sequencing on the peptide peaks recovered from HPLC. On-line ESI LC-MS analyses of the peptide digest were performed to determine the precise mass and sequence of the peptides that were separated by HPLC. The identities of several peptides present in the peptide peaks from the AspN digestion were thus determined (indicated as numbered peaks in FIG. 14). Table 14, below, shows the locations of these peptide sequences in the corresponding component (CRLR or RAMP1) of the hCGRP R. A capital letter C followed by a number or X represents a peptide identified as a CRLR peptide; a capital letter R followed by a number or X is a RAMP1 peptide and “Fc” represents the large, undigested Fc fragment released from the CRLR-Fc and RAMP1-Fc fusion molecules.







TABLE 14







CRLR and RAMP1 peptides identified by peptide


mapping of CGRP R AspN digestion












Sequence

Intact



Peptide
location
Disulfide (#)
mass
Origin














C1
E111-V122
0
1059
CRLR


C2
D33-A38
0
670
CRLR


C3
D55-M63
0
880
CRLR


C4
D68-Q71
0
571
CRLR


C5
D55-P67/D86-H110

n.d.
CRLR


C6
D8-Y24
0
1938
CRLR


C7
E25-Q32/D48-N54
1
1933
CRLR


C-X

3
n.d.
CRLR


R1
D32-A44
0
1622
RAMP1


R2
E12-V20/D45-A51
1
1939
RAMP1


R-X
C1-R86
3
10049
RAMP1


Fc


20500
RAMP1/CRLR









FIG. 15 shows a comparison of an AspN digestion experiment (each sample 30 μg injected) with CGRP R alone (chromatogram labeled A) with one performed in the presence of neutralizing antibody 12G8 (chromatogram labeled B). The weight ratio of CGRP R:antibody was 1:1. Several peaks (C5, C6, and C7) show a decreased in peak height in chromatogram B relative to chromatogram A, while two other peaks (C-X and R-X) show an increase in peak height in chromatogram B relative to chromatogram A. A similar peptide map pattern was also observed if a different neutralizing anti-CGRP R antibody (10E4, 3B6, 3C8 or 4E4) at a similar quantity was present in the digestion sample as seen in the chromatogram labeled C. Both C6 and C7 are disulfide linked peptides which cover a major portion of the CRLR molecule while C5 is a CRLR non-disulfide containing peptide residing at the N-terminal end of the molecule and is penultimate to the C7 disulfide peptide. Peak C-X contains three CRLR disulfide bonds with multiple sequences, indicating at least two to three peptides are linked together by disulfide bonds. The fact that peak C-X has increased peak height in a CGRP R digest in the presence of CGRP neutralizing antibody indicates that the antibody has protected CGRP R from AspN digestion at several cleavage sites related to Glu25 and Asp55. The antibody does not appear to have a significant protective effect on Asp33 and Asp72 as peak intensity for peptides C2 and C4 did not decrease at all. Therefore the antibody appears to bind to a region of CRLR which includes the CRLR C1-C3 and CRLR C4-C6 disulfide region together with the loop region between Cys53 and Cys66.
The AspN mapping of hCGRP R also identified a RAMP1 disulfide peptide (R2) and a RAMP1 non-disulfide peptide (R1) (see Table 14 and FIG. 14). In the presence of any of the above-mentioned neutralizing antibodies (12G8, 10E4, 4E4, 3B6 or 3C8), peptide R-X was recovered at a significantly higher peak intensity than what was obtained from the digestion with no antibody in the sample. Mass and sequence analyses showed that R-x contains a single polypeptide chain corresponding to the RAMP1 sequence between Cys1 and Arg86. These experiments indicate that CGRP R neutralizing antibody can protect a significant region of RAMP1 from AspN proteolytic digestion.
To assess whether the protective effect of CGRP R AspN proteolysis is specific to CGRP R-neutralizing (blocking) antibodies (as compared with anti-CGRP R non-neutralizing antibodies), an AspN digestion of CGRP R was performed in the presence of an unrelated control monoclonal antibody which does not neutralize CGRP R activity. The results are shown in FIG. 15 in chromatogram D. The non-neutralizing antibody does not show any significant blocking effect on CGRP R AspN proteolysis; indeed, the peptide map profile (chromatogram D) is nearly indistinguishable in the relevant aspects to the profile derived from digestion of CGRP R alone (chromatogram A).
The proteolysis protection effect was dependent on the concentration added to the digestion sample. As seen in FIG. 16, a fixed CGRP R quantity in the sample (100 μg) with variable amounts of anti-CGRP R neutralizing antibody 4E4 (CGRP R:antibody ratio in micrograms, 100:2; 100:7; 100:20, weight by weight, respectively) was performed for Aspen proteolysis. The protection profile can be observed and the protection is antibody concentration-dependent.
Taken together, these data demonstrate that blocking or neutralizing anti-CGRP R antibodies disclosed herein can block CGRP R (on both CRLR and RAMP1 components) from AspN proteolysis, suggesting that the blocking antibodies bind to both CRLR and RAMP1 when these antibodies bind to the CGRP receptor. Further, the protection effect is antibody-concentration dependent. These results also indicate that CGRP R neutralizing antibodies bind to common regions on human CGRP R which are close the Asp N cleavage sites.
EXAMPLE 11
Commercially-Available Anti-RAMP1 and Anti-CRLR Antibodies in a cAMP Functional Assay
Commercially-available antibodies directed against one or the other components (RAMP1 or CRLR) of the human CGRP receptor were screened in the CGRP receptor mediated cAMP assay using HTB-10 cells as described in Example 4, above, to determine whether the antibodies had biological activity. The data are presented in Table 15, below. The antibodies had either no detectable (“ND”), very weak (“VW”) or weak (“W”) biological activity over a concentration range where the exemplary antibodies disclosed herein had strong biological activity.







TABLE 15







Commercially-available antibody activity













Antigen or




Name
Source
epitope
Vendor
HTB-10 activity





CRLR
Rabbit
N-terminal ECD
Abcam Inc.,
ND


antibody
polyclonal Ab
of hCRLR
Cambridge, MA


(ab13164)


CALCRL
Rabbit
N-terminal ECD
GenWay
ND


antibody
polyclonal Ab
of hCRLR
Biotech, Inc.,





San Diego, CA


CRLR (N-18)
Goat polyclonal
epitope mapping
Santa Cruz
VW



Ab
near N-terminus
Biotech




of hCRLR


CRLR (H-42)
Rabbit
aa23-64 of
Santa Cruz
ND



polyclonal Ab
hCRLR
Biotech


CALCRL
Mouse
aa23-133 of
Novus
VW


Antibody
polyclonal Ab
hCRLR
Biologicals, Inc.


(A01)


RAMP1 (N-
Goat polyclonal
epitope mapping
Santa Cruz
ND


20)
Ab
at N-terminus of
Biotech




hCRLR


RAMP1
Mouse
aa27-118 of
Novus
W


Antibody
polyclonal Ab
hRAMP1
Biologicals,


(M01)


Inc., Littleton,





CO


RAMP1
Mouse
aa27-118 of
Novus
ND


Antibody (1F1)
monoclonal Ab
hRAMP1
Biologicals, Inc.


RAMP1
Mouse
full-length of
Abcam, Inc.
W


antibody
polyclonal Ab
hRAMP1


(ab67151)


RAMP1 (FL-
Rabbit
full length
Santa Cruz
ND


148)
polyclonal Ab
hRAMP1
Biotech, Santa





Cruz, CA









EXAMPLE 12
Immunohistochemistry Staining of Cells Expressing Different Receptor Components
2-4×106 cells were injected per colla plug (Integra LifeSciences Co., Plainsboro, N.J.). Colla plugs were embedded in OCT medium (Sakura Finetek Inc., Torrance, Calif.), frozen at −20° C. and cut into 20 μm sections using a cryostat. Sections were fixed with 4% paraformaldehyde for 1 hour at room temperature (RT) and subsequently washed in phosphate-buffered saline (PBS). Endogenous peroxidase was blocked with 3% H2O2/PBS for 15 min and sections were incubated in blocking solution (PBS with 3% normal goat serum (Vector Labs, Burlingame, Calif.) and 0.3% triton X-100) for 1 hour. Subsequently, sections were incubated in human anti-CGRP receptor primary antibody (32H7, 0.03-0.1 μg/ml) at 4° C. over night, washed in PBS and incubated in secondary antibody (biotinylated goat anti-human IgG Fc fragment, 1:800, Jackson Immunoresearch, West Grove, Pa.) in 1% normal goat serum/PBS for 1 hour at RT. Immunoreactivity was amplified using the Vector Elite Kit according to the manufacturer's instructions (Vector Labs, Burlingame, Calif.) and staining was developed using 3,3′-diaminobenzidine-nickel as chromogen (Sigma-Aldrich, St. Louis, Mo.). Sections were cleared with xylene and cover slipped with Permount (Fisher Chemicals, Fair Lawn, N.J.). Immunoreactivity was analyzed using a Nikon E-800 microscope and associated software (Nikon, Melville, N.Y.).
Data from cells expressing different receptor components (as identified below) using antibody 32H7 as described above revealed pronounced staining of CHO cells expressing recombinant human CGRP receptor (CRLR+RAMP1; “CHO/CGRP R cells”) and weaker staining of SK-N-MC cells that endogenously express CGRP receptors (due to much lower receptor density). No staining was observed in the parent CHO cell line, CHO cells expressing an unrelated recombinant protein (TRPM8), CHO/CGRP R cells after preabsorption with the corresponding 32H7 antigen, CHO cells expressing recombinant human adrenomedullin receptor 2 (CRLR+RAMP3), MCF-7 cells endogenously expressing amylin receptors, HEK cells expressing recombinant human adrenomedullin receptor 1 (CRLR+RAMP2), or the parent HEK cells. The data from these experiments are summarized in Table 16, below.







TABLE 16







Immunohistochemical staining intensity of indicated cells










Cell line
Staining intensity (visual score)







CGRP/CHO
 4+



SK-N-MC
 1+



CHO
0



TRPM8/CHO
0



CGRP/CHO preadsorbed
0



AM2/CHO
0



MCF-7
0



AM1/HEK
0



HEK
0










All patents and other publications identified are expressly incorporated herein by reference for the purpose of describing and disclosing, for example, the methodologies described in such publications that might be used in connection with the subject matter disclosed herein. These publications are provided solely for their disclosure prior to the filing date of the present application. Nothing in this regard should be construed as an admission that the inventors are not entitled to antedate such disclosure by virtue of prior invention or for any other reason. All statements as to the date or representation as to the contents of these documents is based on the information available to the applicants and does not constitute any admission as to the correctness of the dates or contents of these documents.

## Claims

1. An isolated antibody or antigen-binding fragment thereof, wherein said antibody or antigen-binding fragment thereof specifically binds the human CGRP receptor and comprises a CDRH1 having the sequence of SEQ ID NO:73, a CDRH2 having the sequence of SEQ ID NO:74, a CDRH3 having the sequence of SEQ ID NO:75, a CDRL1 having the sequence of SEQ ID NO:42, a CDRL2 having the sequence of SEQ ID NO:43, and a CDRL3 having the sequence of SEQ ID NO:44.

2. The isolated antibody or antigen-binding fragment thereof of claim 1, wherein the isolated antibody is a monoclonal antibody selected from the group consisting of a fully human antibody and a chimeric antibody.

3. The isolated antibody or antigen-binding fragment thereof of claim 1, wherein the antibody is a monoclonal IgG1 or monoclonal IgG2 antibody.

4. The isolated antibody or antigen-binding fragment thereof of claim 1, wherein the isolated antibody or antigen-binding fragment thereof specifically binds to human CGRP receptor with a KD ≦100 nM.

5. The isolated antibody or antigen-binding fragment thereof of claim 4, wherein the isolated antibody or antigen-binding fragment thereof specifically binds to human CGRP receptor with a KD ≦10 nM as determined using a FACS binding assay.

6. The isolated antibody or antigen-binding fragment thereof of claim 1, wherein said antibody or antigen-binding fragment thereof comprises (i) a heavy chain variable region (VH) sequence that has at least 95% sequence identity with SEQ ID NO:158, and (ii) a light chain variable region (VL) sequence that has at least 95% sequence identity with SEQ ID NO:142.

7. The isolated antibody or antigen-binding fragment thereof of claim 1 wherein the isolated antibody or antigen-binding fragment thereof is selected from the group consisting of a monoclonal antibody, a Fab fragment, an Fab′ fragment, an F(ab′)2 fragment, an Fv fragment, a diabody, and a single chain antibody.

8. The isolated antibody or antigen-binding fragment thereof of claim 7, wherein the isolated antibody or antigen-binding fragment thereof is a monoclonal antibody selected from the group consisting of a fully human antibody and a chimeric antibody.

9. The isolated antibody or antigen-binding fragment thereof of claim 8, wherein the monoclonal antibody is an IgG1-, IgG2-, IgG3-, or IgG4-type antibody.

10. The isolated antibody or antigen-binding fragment thereof of claim 9, wherein the monoclonal antibody is an IgG1 or IgG2 antibody.

11. The isolated antibody or antigen-binding fragment thereof of claim 6, wherein the isolated antibody is a monoclonal antibody selected from the group consisting of a fully human antibody and a chimeric antibody.

12. The isolated antibody or antigen-binding fragment thereof of claim 6, wherein the antibody is a monoclonal IgG1 or monoclonal IgG2 antibody.

13. An isolated antibody that specifically binds the human CGRP receptor and comprises a heavy chain variable region (VH) comprising the sequence of SEQ ID NO:158, and a light chain variable region (VL) comprising the sequence of SEQ ID NO:142.

14. An isolated antibody that specifically binds the human CGRP receptor and comprises a heavy chain comprising the sequence of SEQ ID NO:29, and a light chain comprising the sequence of SEQ ID NO:17.

15. A pharmaceutical composition comprising an antibody or antigen-binding fragment thereof of claim 1 and a pharmaceutically acceptable excipient.