# Patent

## Title
Immunosuppression modulating compounds

## Abstract

The present invention provides immunosuppression compounds capable of inhibiting the programmed cell death 1 (PD1) signalling pathway. The present invention further provides peptide based compositions for treatment of cancer or treatment of infections via immunopotentiation caused by inhibition of immunosuppressive signaling induced by PD-1, PD-L1, or PD-L2 and therapies using them, immunopotentiative substrates included as the active ingredient. Further, the invention provides an application of the compositions containing the peptide moieties for preventive and/or therapeutic agents for cancer, cancer metastasis, immunodeficiency, an infectious disease or the like and an application of peptide moieties as a testing or diagnostic agent or a research agent for such a disease.

## Background
RELATED APPLICATION
This application claims the benefit of Indian provisional application number 1805/CHE/2010 filed on Jun. 25, 2010 and U.S. provisional application No. 61/381,593 filed on Sep. 10, 2010 all of which hereby incorporated by reference.


FIELD OF INVENTION
The present invention relates to novel peptide compound of formula-I




or pharmaceutically acceptable salt thereof; wherein; the compound comprises at least 5 amino acids useful as therapeutic agents capable of inhibiting the programmed cell death 1 (PD1) signalling pathway.
The invention also relates to modifications and derivatives of the therapeutic agents.
The invention further relates to pharmaceutical compositions comprising the said novel peptide compound of formula-I or pharmaceutically acceptable salt thereof as therapeutic agents.
The compounds of the present invention are useful in therapy relating to particular diseases or associated disorders where there is an advantage in immuno-potentiation comprising inhibition of an immunosuppressive signal induced due to PD-1, PD-L1, or PD-L2.
The present invention relates to novel peptides as therapeutic agents capable of inhibiting the programmed cell death 1 (PD1) signalling pathway.
The invention also relates to modifications and derivatives of the therapeutic agents.
The invention further relates to pharmaceutical compositions comprising the said novel peptides and their derivatives as therapeutic agents.
The invention also encompasses the use of the said therapeutic agents, modifications and derivatives for treatment of disorders via immuno-potentiation comprising inhibition of an immunosuppressive signal induced due to PD-1, PD-L1, or PD-L2.
BACKGROUND OF THE INVENTION
Programmed Cell Death 1 or PD-1 (also referred to as PDCD1) is a 50 to 55 kD type I membrane glycoprotein (Shinohara T et al, Genomics, 1994, Vol. 23, No. 3, pp. 704-706). PD-1 is a receptor of the CD28 superfamily that negatively regulates T cell antigen receptor signalling by interacting with the specific ligands and is suggested to play a role in the maintenance of self tolerance.
PD-1 peptide relates to almost every aspect of immune responses including autoimmunity, tumour immunity, infectious immunity, transplantation immunity, allergy and immunological privilege.
The PD-1 protein's structure comprise of—

    
    
        an extracellular IgV domain followed by
        a transmembrane region and
        an intracellular tail
    
    


The intracellular tail contains two phosphorylation sites located in an immunoreceptor tyrosine-based inhibitory motif and an immunoreceptor tyrosine-based switch motif, which suggests that PD-1 negatively regulates TCR signals. Also, PD-1 is expressed on the surface of activated T cells, B cells, and macrophages, (Y. Agata et al., Int Immunol 8, 765, May 1996) suggesting that compared to CTLA-4 ((Cytotoxic T-Lymphocyte Antigen 4, also known as CD152 (Cluster of differentiation 152) is a protein that also plays an important regulatory role in the immune system), PD-1 more broadly negatively regulates immune responses.
PD-1 has two ligands, PD-L1 (Programmed Death Ligand 1 or PDCD1L1 or B7-H1) (Freeman G J et al, Journal of Experimental Medicine, 2000, Vol. 19, No. 7, pp. 1027-1034) and PD-L2 (Programmed Death Ligand 2 or PDCD1L2 or B7-DC) (Latchman Y et al, Nature Immunology, 2001, Vol. 2, No. 3, pp. 261-267), which are members of the B7 family. PD-L1 is known to be expressed not only in immune cells, but also in certain kinds of tumour cell lines (such as monocytic leukaemia-derived cell lines, mast cell tumour-derived cell lines, hematoma-derived cell lines, neuroblastoma-derived cell lines, and various mammary tumour-derived cell lines) and in cancer cells derived from diverse human cancer tissues (Latchman Y et al, Nature Immunology, 2001, Vol. 2, No. 3, pp. 261-267) and on almost all murine tumour cell lines, including PA1 myeloma, P815 mastocytoma, and B16 melanoma upon treatment with IFN-γ (Y. Iwai et al., Proc Natl Acad Sci USA 99, 12293, Sep. 17, 2002 and C. Blank et al., Cancer Res 64, 1140, February, 2004). Similarly PD-L2 expression is more restricted and is expressed mainly by dendritic cells and a few tumour cell lines. PD-L2 expression has been verified in Hodgkin's lymphoma cell lines and others. There is a hypothesis that some of the cancer or tumour cells take advantage from interaction between PD-1 and PD-L1 or PD-L2, for suppressing or intercepting T-cell immune responses to their own (Iwai Y et al, Proceedings of the National Academy of Science of the United States of America, 2002, Vol. 99, No. 19, pp. 12293-12297).
Tumour cells and virus (including HCV and HIV) infected cells are known to express the ligand for PD-1 (to create Immunosuppression) in order to escape immune surveillance by host T cells. It has been reported that the PD-1 gene is one of genes responsible for autoimmune diseases like systemic lupus erythematosis (Prokunina et al, Nature Genetics, 2002, Vol. 32, No. 4, 666-669). It has also been indicated that PD-1 serves as a regulatory factor for the onset of autoimmune diseases, particularly for peripheral self-tolerance, on the ground that PD-1-deficient mice develop lupus autoimmune diseases, such as glomerulonephritis and arthritis (Nishimura H et al, International Immunology, 1998, Vol. 10, No. 10, pp. 1563-1572; Nishimura H et al, Immunity, 1999, Vol. 11, No. 2, pp. 141-151), and dilated cardiomyopathy-like disease (Nishimura H et al, Science, 2001, Vol. 291, No. 5502, pp. 319-332).
Hence, in one approach, blocking the interaction of PD-1 with its ligand (PD-L1, PD-L2 or both) may provide an effective way for specific tumour and viral immunotherapy.
Wood et al in U.S. Pat. No. 6,808,710 discloses method for down modulating an immune response comprising contacting an immune cell expressing PD-1 with an antibody that binds to PD-1, in multivalent form, such that a negative signal is transduced via PD-1 to thereby down modulate the immune response. Such an antibody may be a cross-linked antibody to PD-1 or an immobilized antibody to PD-1.
Freeman et al in U.S. Pat. No. 6,936,704 and its divisional U.S. Pat. No. 7,038,013 discloses isolated nucleic acids molecules, designated B7-4 nucleic acid molecules, which encode novel B7-4 polypeptides, isolated B7-4 proteins, fusion proteins, antigenic peptides and anti-B7-4 antibodies, which co-stimulates T cell proliferation in vitro when the polypeptide is present on a first surface and an antigen or a polyclonal activator that transmits an activating signal via the T-cell receptor is present on a second, different surface.
There are some reports regarding substances inhibiting immunosuppressive activity of PD-1, or interaction between PD-1 and PD-L1 or PD-L2, as well as the uses thereof. A PD-1 inhibitory antibody or the concept of a PD-1 inhibitory peptide is reported in WO 01/14557, WO 2004/004771, and WO 2004/056875. On the other hand, a PD-L1 inhibitory antibody or a PD-L1 inhibitory peptide is reported in WO 02/079499, WO 03/042402, WO 2002/086083, and WO 2001/039722. A PD-L2 inhibitory antibody or a PD-L2 inhibitory peptide is reported in WO 03/042402 and WO 02/00730.
WO2007005874 describes isolated human monoclonal antibodies that specifically bind to PD-L1 with high affinity. The disclosure provides methods for treating various diseases including cancer using anti-PD-L1 antibodies.
US2009/0305950 describes multimers, particularly tetramers of an extracellular domain of PD-1 or PD-L1. The application describes therapeutic peptides.
Further, the specification mentions that peptides can be used therapeutically to treat disease, e.g., by altering co-stimulation in a patient. An isolated B7-4 or PD-1 protein, or a portion or fragment thereof (or a nucleic acid molecule encoding such a polypeptide), can be used as an immunogen to generate antibodies that bind B7-4 or PD-1 using standard techniques for polyclonal and monoclonal antibody preparation. A full-length B7-4 or PD-1 protein can be used, or alternatively, the invention provides antigenic peptide fragments of B7-4 or PD-1 for use as immunogens. The antigenic peptide of B7-4 or PD-1 comprises at least 8 amino acid residues and encompasses an epitope of B7-4 or PD-1 such that an antibody raised against the peptide forms a specific immune complex with B7-4 or PD-1. Preferably, the antigenic peptide comprises at least 10 amino acid residues, more preferably at least 15 amino acid residues, even more preferably at least amino acid residues, and most preferably at least 30 amino acid residues.
Freeman et al in U.S. Pat. No. 7,432,059 appears to disclose and claim methods of identifying compounds that up modulate T cell activation in the presence of a PD-1-mediated signal. Diagnostic and treatment methods utilizing compositions of the invention are also provided in the patent.
Further, Freeman et al in U.S. Pat. No. 7,709,214 appears to cover methods for up regulating an immune response with agents that inhibit the interactions between PD-L2 and PD-1.
Despite existence of many disclosures as discussed above, however, a significant unmet medical need still exists due to the lack of effective peptides or modified peptides as therapeutic agents as alternatives in the therapeutic area. It is known that synthetic peptides offer certain advantages over antibodies such as ease of production with newer technologies, better purity and lack of contamination by cellular materials, low immunogenicity, improved potency and specificity. Peptides may be more stable and offer better storage properties than antibodies. Moreover, often peptides possess better tissue penetration in comparison with antibodies, which could result in better efficacy. Peptides can also offer definite advantages over small molecule therapeutics counterparts such as lesser degree of toxicity and lower probability of drug-drug interaction.
The present invention therefore may provide the solution for this unmet medical need by offering novel synthetic peptide and its derivatives which are based on the PD1 ectodomain.



BRIEF DESCRIPTION OF ACCOMPANYING DRAWINGS
FIG. 1: Potency determination for compound #8 in assay for inhibition of binding of PD1 to PD-L2 using hPDL2 expressing HEK293 cells.
FIG. 2: Abrogation of PDL1 mediated inhibition of rat PBMC proliferation with compound 8
FIG. 3: EC50 determination for compound 8 in rat PBMC proliferation assay in the context of PD-1/PD-L1 pathway.
FIG. 4: Restoration of human PBMC proliferation in the context of human PDL1 with various compounds.
FIG. 5: Comparison of percentage mouse splenocyte proliferation rescue of compound 8, 13 and 34 with J43 antibody.
FIG. 6: Effect of various test compounds on IFN-γ production in Cytotoxic T Lymphocyte assay.
FIG. 7: Effect of compound #8 on tumour growth inhibition of B16F10 cells injected subcutaneously.
FIG. 8: Effect of compound #8 on lung metastasis of B16F10 cells injected i.v.
FIG. 9: Effect of various compounds on lung metastasis in B16F10 model.
FIG. 10: Effect of compound #8 on tumour growth inhibition of 4T1 cells injected orthotopically to mammary fat pad.
FIG. 11: Effect of peptides in reducing tumour burden in kidney injected orthotopically with RENCA cells.
FIG. 12: In vivo efficacy of compound 8 against E. coli sepsis model.



AMINO ACID SEQUENCE INFORMATION
SEQ ID NO: 1 shows amino acid sequence of human PD-1 ectodomain
SEQ ID NO: 2 shows amino acid sequence of A strand of human PD-1 ectodomain
SEQ ID NO: 3 shows amino acid sequence of B strand of human PD-1 ectodomain
SEQ ID NO: 4 shows amino acid sequence of BC loop of human PD-1 ectodomain
SEQ ID NO: 5 shows amino acid sequence of C strand of human PD-1 ectodomain
SEQ ID NO: 6 shows amino acid sequence of C—C′ loop of human PD-1 ectodomain
SEQ ID NO: 7 shows amino acid sequence of C′ strand of human PD-1 ectodomain
SEQ ID NO: 8 shows amino acid sequence of C′—C′′ loop of human PD-1 ectodomain
SEQ ID NO: 9 shows amino acid sequence of C′′ strand of human PD-1 ectodomain
SEQ ID NO: 10 shows amino acid sequence of C′′-D loop of human PD-1 ectodomain
SEQ ID NO: 11 shows amino acid sequence of D strand of human PD-1 ectodomain
SEQ ID NO: 12 shows amino acid sequence of D-E loop of human PD-1 ectodomain
SEQ ID NO: 13 shows amino acid sequence of E strand of human PD-1 ectodomain
SEQ ID NO: 14 shows amino acid sequence of F strand of human PD-1 ectodomain
SEQ ID NO: 15 shows amino acid sequence of FG loop of human PD-1 ectodomain
SEQ ID NO: 16 shows amino acid sequence of G strand of human PD-1 ectodomain
SEQ ID NO: 17 shows amino acid sequence of mouse PD-1 ectodomain
SEQ ID NO: 18 shows amino acid sequence of rat PD-1 ectodomain
SEQ ID NO: 19 shows amino acid sequence of dog PD-1 ectodomain
SEQ ID NO: 20 shows amino acid sequence of horse PD-1 ectodomain
SEQ ID NO: 21 shows amino acid sequence of C′ strand to C′C′′ loop of human PD-1 ectodomain
SEQ ID NO: 22 shows amino acid sequence of C′ strand to C′′ strand of human PD-1 ectodomain
SEQ ID NO: 23 shows amino acid sequence of CC′ loop to C′ strand of human PD-1 ectodomain
SEQ ID NO: 24 shows amino acid sequence of FG loop to G strand of human PD-1 ectodomain
SEQ ID NO: 25 shows amino acid sequence of D strand to DE loop of human PD-1 ectodomain
SEQ ID NO: 26 shows amino acid sequence of B strand of mouse PD-1 ectodomain
SEQ ID NO: 27 shows amino acid sequence of BC loop of mouse PD-1 ectodomain
SEQ ID NO: 28 shows amino acid sequence of C-Strand of mouse PD-1 ectodomain
SEQ ID NO: 29 shows amino acid sequence of C—C′ loop of mouse PD-1 ectodomain
SEQ ID NO: 30 shows amino acid sequence of C′-strand of mouse PD-1 ectodomain
SEQ ID NO: 31 shows amino acid sequence of C′′ strand of mouse PD-1 ectodomain
SEQ ID NO: 32 shows amino acid sequence of C′′-D-loop of mouse PD-1 ectodomain
SEQ ID NO: 33 shows amino acid sequence of D-strand of mouse PD-1 ectodomain
SEQ ID NO: 34 shows amino acid sequence of F-strand of mouse PD-1 ectodomain
SEQ ID NO: 35 shows amino acid sequence of F-G loop of mouse PD-1 ectodomain
SEQ ID NO: 36 shows amino acid sequence of G-strand of mouse PD-1 ectodomain
SEQ ID NO: 37 shows amino acid sequence of C′ strand to C′C′′ loop of mouse PD-1 ectodomain
SEQ ID NO: 38 shows amino acid sequence of C′ strand to C′′ strand of mouse PD-1 ectodomain
SEQ ID NO: 39 shows amino acid sequence of CC′ loop to C′ strand of mouse PD-1 ectodomain
SEQ ID NO: 40 shows amino acid sequence of FG loop to G strand of mouse PD-1 ectodomain
SEQ ID NO: 41 shows amino acid sequence of D strand to DE loop of mouse PD-1 ectodomain
SUMMARY OF INVENTION
In accordance with the present invention, novel modified peptides are provided which are capable of suppressing and/or inhibiting the programmed cell death 1 (PD1) signalling pathway.
In one aspect of the present invention, it provides the structure of compounds as set forth in Formula I.




or pharmaceutically acceptable salt thereof;

wherein;

the compound comprises at least 5 amino acids,

A is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments selected from FG loop, BC loop, C—C′ loop, C strand, C′ strand to C′—C′′ loop, C C′ loop to C′ strand, or is Glu-Asp, or is absent;

B is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments selected from BC loop, FG loop, C C′ loop to C′ strand, C strand, D strand, C′ strand to C′—C′′ loop, or is Glu-Asp, or is absent;

Z is

    
    
        (i). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, G strand, C strand, F strand, C′ strand, C′′ strand, C′′-D loop, C′ strand to C′—C′′ loop, C′ strand to C′′ strand or D strand to DE loop;
        (ii). G-L-Z′
        
            G is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments from D-strand or is absent;
            L is selected from —CO(CH2)n—NH—, or PEG 2-20 KD;
            ‘n’ is an integer selected from 2 to 10, both inclusive; and
            Z′ is one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from FG loop and G-strand; or
        
        
        (iii). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from D-strand, FG loop and G strand, wherein two or more amino acids of the peptide sequence combine together to form a lactam bond between any of the two fragments or within the fragment;

D is up to two peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, FG loop, C C′ loop to C′ strand or is absent;

E is up to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, C C′ loop to C′ strand, G strand, FG loop to G strand or is absent;

X and X′ are independently selected from lysine, ornithine, diaminopropionic acid, diaminobutyric acid or olefinic amino acid of formula

    
    






which is optionally linked with an additional lysine; or

    
    
        X and X′ combine together forming a ring with olefinic amino acid which is optionally linked with an additional lysine; or
        one of the X or X′ is absent or both are absent;
        ‘m’ is an integer selected from 1 to 6, both inclusive;

R1 is selected from group consisting of C2-C20 acyl, PEG 2-20 KD moiety; or absent.

R2 and R3 are independently selected from group consisting of C2-C20 acyl, PEG 2-20 KD, absent or Ra-L′;

        Ra is selected from biotin or maleimido propionic acid;
        L′ is selected from linkers —CO(CH2)n—NH—, —CO(CH2—CH2—O—)n NH or —COCH2(—OCH2—CH2)nNH—; and
        ‘n’ is an integer selected from 2 to 10, both inclusive;

R4 and R5 are independently NH2, or one or both of R4 or R5 are absent.

with the proviso to the compound of Formula I, that in a compound of Formula I as above defined:

        a) up to 5 but not more than 25% of the amino acids may be substituted with other natural or unnatural amino acids;
        b) not more than 30% of the amino acids may be omitted;
        c) in each said peptide sequence up to 2 amino acids may be added individually at any position;
        d) up to 5 but not more than 25% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—);
        e) up to 100% of the amino acids may be D-amino acids;
        f) up to 100% of the amino acids may be in reverse order.
    
    


In another aspect of the present invention, it provides compound of Formula-I useful in the treatment or prevention of disease or disorder, where there is an advantage in inhibition of the programmed cell death 1 (PD1) signalling pathway and ability to reduce PD-L1 or PD-L2 binding to PD-1 and resulting immunosuppressive signalling by PD-1.
DETAILED DESCRIPTION OF THE INVENTION
The term ‘peptide’ is used herein to designate a sequence of natural or unnatural amino acids bonded in said sequence by peptide bonds or reduced peptide bond.
The term ‘compound(s)’ as used herein comprises peptides as disclosed in the present invention.
The following common abbreviations of the amino acids are used throughout this specification:














Gly (or G)—glycine
Ala (or A)—alanine
Val (or V)—valine


Leu (or L)—leucine
Ile (or I)—isoleucine
Orn—ornithine


Pro (or P)—proline
Phe (or F)—phenylalanine
Trp (or W)—tryptophan


Met (or M)—methionine
Ser (or S)—serine
Thr (or T)—threonine


Cys (or C)—cysteine
Tyr (or Y)—tyrosine
Asn (or N)—asparagine


Gln (or Q)—glutamine
Asp (or D)—aspartic acid
Glu (or E)—glutamic acid


Lys (or K)—lysine
Arg (or R)—arginine
His (or H)—histidine


DAP—2,3-Diaminopropionic
DAB—2,4-Diaminobutyric



Acid
Acid









The small letter codes are used to represent the D-amino acids throughout the specification.
Modifications of the peptides discussed hereinafter and wherever relevant include replacements of some or all of the L-amino acids by D-amino acids, bonding of amino acids at other than alpha amino groups, including at side chain amino or carboxylic groups, inclusion of non-peptide linkers between peptide sequences, cross-linking, lipidation, stapling, and PEGylation.
Modifications of the peptides discussed hereinafter and wherever relevant further comprise modified peptide bond between two amino acids, wherein the typical peptide bond (—CONH—) between two amino acids is replaced with reduced amide bond (—CH2NH—). Using convention method of identification this is characterized as —Ψ[CH2NH]— with the symbol “Ψ” designating a modified peptide bond.
As used herein, “unnatural amino acid” is an amino acid that is not naturally produced (e.g., encoded by the genetic code or resulting from a posttranslational modification) or naturally found in a mammal. Unnatural amino acids include amino acids that normally do not occur in proteins (e.g., an α-amino acid having the D-configuration, or a (D,L)-isomeric mixture thereof), homologues of naturally occurring amino acids (e.g., a β- or γ-amino acid analogue), an α,α-di-substituted analogue of a naturally occurring amino acid, or an α-amino acid wherein the amino acid side chain has been shortened by methylene groups which includes but are not limited to diaminopropionic acid (DAP), diaminobutyric acid (DAB), ornithine (Orn) and the like; or lengthened to up to 10 carbon atoms; or lengthened up to 10 carbon atoms with olefinic groups which includes but are not limited to




Other unnatural amino acids include γ-amino acids that are GABA analogues, such as (S)-3-(aminomethyl)-5-methylhexanoic acid (pregabalin), 2-[1-(aminomethyl)cyclohexyl]acetic acid (gabapentin), or those described in Yogeeswari et al., Recent Patents on CNS Drug Discovery 2006; 1:113-118, herein incorporated by reference.
The present invention provides immunosuppression modulating peptides capable of suppressing and/or inhibiting the programmed cell death 1 (PD1) signalling pathway.
The present invention further provides modifications, derivatives of the peptides and pharmaceutical compositions comprising the peptides for treatment of cancer or infection via immuno-potentiation caused by inhibition of immunosuppressive signal induced by PD-1, PD-L1, or PD-L2 and therapies using them, immuno-potentiative substrates included as the active ingredients.
The complete amino acid sequence of human PD-1 is disclosed in U.S. Pat. No. 5,629,204 (Honjo et. al.) and Finger et al., (Gene, 1997, 197:177-187). Human and mouse PD-1 share around 60% amino acid identity, whereas the extracellular IgV domain shows only 21% and 16% sequence identity with CD28 and CTLA4, respectively.
PD-1 possesses an ectodomain having multiple loop structures and strands between the loops. The amino acid sequence of the human PD-1 ectodomain is as set forth in SEQ ID NO: 1.







human PD-1


SEQ ID NO: 1


PPTFSPALLVVTEGDNATFTCSFSNTSESFVLNWYRMSPSNQTDKLAAF


 


PEDRSQPGQDCRFRVTQLPNGRDFHMSVVRARRNDSGTYLCGAISLAPK


 


AQIKESLRAELRVTERRAEVPTAHPSPSPRSAGQFQTLV






The loop and strand sequences within the human PD-1 ectodomain sequence are as follows:







A strand:


SEQ ID NO: 2


PPTFS


 


B strand:


SEQ ID NO: 3


ATFT CSF


 


BC loop:


SEQ ID NO: 4


SNTSESF


 


C-Strand:


SEQ ID NO: 5


VLNWYRM


 


C-C′ loop:


SEQ ID NO: 6


SPSNQ


 


C′-strand:


SEQ ID NO: 7


TDKLAAFP


 


C′-C′′ loop:


SEQ ID NO: 8


ED


 


C′′ strand:


SEQ ID NO: 9


RSQP


 


C′′-D-loop:


SEQ ID NO: 10


GQDCR


 


D-strand:


SEQ ID NO: 11


FRVTQ


 


DE loop: 


SEQ ID NO: 12


LPNG R


 


E strand:


SEQ ID NO: 13


DFHMSV


 


F-strand:


SEQ ID NO: 14


GTYLC GAIS


 


F-G loop:


SEQ ID NO: 15


LAPKA


 


G-strand:


SEQ ID NO: 16


QIKE


 


C′ strand to C′C′′ loop:


SEQ ID NO: 21


FPED


 


C′ strand to C′′ strand:


PSEQ ID NO: 22


TDKLAAFPEDRSQ


 


CC′ loop to C′ strand:


SEQ ID NO: 23


SPSNQTDKLAAFP


 


FG loop to G strand:


SEQ ID NO: 24


LAPKAQIKE


 


D strand to DE loop:


SEQ ID NO: 25


FRVTQLPNGR


 


Mouse-PD-1


SEQ ID NO: 17


SLTFYPAWLTVSEGANATFTCSLSNWSEDLMLNWNRLSPSNQTEKQAAF


 


CNGLSQPVQDARFQIIQLPNRHDFHMNILDTRRNDSGIYLCGAISLHPK


 


AKIEESPGAELVVTERILETSTRYPSPSPKPEGRFQGMV






The loop and strand sequences within the mouse PD-1 ectodomain sequence are as follows:







B strand:


SEQ ID NO: 26


ATFT CSL


 


BC loop:


SEQ ID NO: 27


SNWSEDL


 


C-Strand:


SEQ ID NO: 28


MLNWNRL


 


C-C′ loop:


SEQ ID NO: 29


SPSNQ


 


C′-strand:


SEQ ID NO: 30


TEKQAAFC


 


C′′ strand:


SEQ ID NO: 31


LSQP


 


C′′-D-loop:


SEQ ID NO: 32


VQDAR


 


D-strand:


SEQ ID NO: 33


FQIIQ


 


F-strand:


SEQ ID NO: 34


GIYLC GAIS


 


F-G loop:


SEQ ID NO: 35


LHPKA


 


G-strand:


SEQ ID NO: 36


KIEE


 


C′ strand to C′C′′ loop:


SEQ ID NO: 37


FCNG


 


C′ strand to C′′ strand:


SEQ ID NO: 38


TEKQAAFCNGLSQP 


 


CC′ loop to C′ strand:


SEQ ID NO: 39


SPSNQTEKQAAFC


 


FG loop to G strand:


SEQ ID NO: 40


LHPKAKIEE


 


D strand to DE loop:


SEQ ID NO: 41


FQIIQLPNRH


 


Rat-PD-1


SEQ ID NO: 18


QLSWQSGWLLVSEGANATFTCSFSNWSEDLKLNWYRLSPSNQTEKQAAF


 


CNGYSQPVRDARFQIVQLPNGHDFHMNILDARRNDSGIYLCGAISLPPK


 


AQIKESPGAELVVTERILETPTRYPRPSPKPEGQFQGLV


 


Dog-PD-1


SEQ ID NO: 19


PLTFSPAQLTVQEGENATFTCSLADIPDSFVLNWYRLSPRNQTDKLAAF


 


QEDRIEPGRDRRFRVMRLPNGRDFHMSIVAARLNDSGIYLCGAIYLPPN


 


TQINESPRAELSVTERTLEPPTQSPSPPPRLSGQLQGLV


 


Horse-PD-1


SEQ ID NO: 20 


PLTFSPARLMVPEGANATFTCSFSNTSEHFVLNWYRMSPSNQTDKLAAF


 


PEDSSQPGRSGRFRVTRLPNGRDFHMSVLAARRNDSGIYLCGAISLPPK


 


TQINESPRAELTVTERIPEPPTEHPSPPPSPAGQLQGLV






These loop and strand assignments of amino acids are based on the 1.8-Å-resolution structure of the murine PD-1/PD-L2 complex reported in Lazar-Molnar et al, (PNAS, 2008, 105, 30, 10483-10488) taking into account amino acid sequence variations between the human and murine proteins as reported there. Lazar-Molnar et al describes an alignment of the PD-1 ectodomain of mouse, human, rat, dog and horse PD-1 is shown with the β strands in mouse PD-1 denoted with arrow segments above the sequence.
The present invention further provides compounds comprising an ectodomain peptide fragment of murine, rat, dog or horse PD-1 (Lazar-Molnar et al, PNAS, 2008, 105, 30, 10483-10488).
Thus, in a compound comprising branched peptides, one or more branches may contain as a peptide moiety of the said ectodomain portion of human PD-1 (SEQ ID NO: 1) comprising of at least 5 amino acid residues.
In accordance with the present invention, in one of the embodiment there are provided compounds capable of inhibiting ability to inhibit the programmed cell death 1 (PD1) signalling pathway and being capable of reducing PD-L1 or PD-L2 binding to PD-1 and resulting immunosuppressive signalling by PD-1, wherein the compound comprises a peptide moiety comprising no more than 35, preferably no more than 30, amino acid residues.
The structure of compounds according to the invention is as set forth in Formula (I)




or pharmaceutically acceptable salt thereof;

wherein;

the compound comprises at least 5 amino acids,

A is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments selected from FG loop, BC loop, C—C′ loop, C strand, C′ strand to C′—C′′ loop, C C′ loop to C′ strand, or is Glu-Asp, or is absent;

B is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments selected from BC loop, FG loop, C C′ loop to C′ strand, C strand, D strand, C′ strand to C′—C′′ loop, or is Glu-Asp, or is absent;

Z is

    
    
        (i). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, G strand, C strand, F strand, C′ strand, C′′ strand, C′′-D loop, C′ strand to C′—C′′ loop, C′ strand to C′′ strand or D strand to DE loop;
        (ii). G-L-Z′
        
            G is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments from D-strand or is absent;
            L is selected from —CO(CH2)n—NH—, or PEG 2-20 KD;
            ‘n’ is an integer selected from 2 to 10, both inclusive; and
            Z′ is one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from FG loop and G-strand; or
        
        
        (iii). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from D-strand, FG loop and G strand, wherein two or more amino acids of the peptide sequence combine together to form a lactam bond between any of the two fragments or within the fragment;

D is up to two peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, FG loop, C C′ loop to C′ strand or is absent;

E is up to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, C C′ loop to C′ strand, G strand, FG loop to G strand or is absent;

X and X′ are independently selected from lysine, ornithine, diaminopropionic acid, diaminobutyric acid or olefinic amino acid of formula

    
    






which is optionally linked with an additional lysine; or

    
    
        X and X′ combine together forming a ring with olefinic amino acid which is optionally linked with an additional lysine; or
        one of the X or X′ is absent or both are absent;
        ‘m’ is an integer selected from 1 to 6, both inclusive;

R1 is selected from group consisting of C2-C20 acyl, PEG 2-20 KD moiety; or absent.

R2 and R3 are independently selected from group consisting of C2-C20 acyl, PEG 2-20 KD, absent or Ra-L′;

        Ra is selected from biotin or maleimido propionic acid;
        L′ is selected from linkers —CO(CH2)n—NH—, —CO(CH2—CH2—O—)n NH or —COCH2(—OCH2—CH2)nNH—; and
        ‘n’ is an integer selected from 2 to 10, both inclusive;

R4 and R5 are independently NH2, or one or both of R4 or R5 are absent.

with the proviso to the compound of Formula I, that in a compound of Formula I as above defined:

        a) up to 5 but not more than 25% of the amino acids may be substituted with other natural or unnatural amino acids;
        b) not more than 30% of the amino acids may be omitted;
        c) in each said peptide sequence up to 2 amino acids may be added individually at any position;
        d) up to 5 but not more than 25% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—);
        e) up to 100% of the amino acids may be D-amino acids;
        f) up to 100% of the amino acids may be in reverse order.

According to one embodiment, specifically provided are compounds of the formula (I) in which

A is an amino acid sequence of from three amino acids to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from FG loop, BC loop, C—C′ loop, C strand, C′ strand to C′—C′′ loop, C C′ loop to C′ strand as in table below, or is Glu-Asp, or is absent;

    
    

















hPD-1
SEQ ID No
mPD-1
SEQ ID No



















BC Loop
SNTSESF
4
SNWSEDL
27


C Strand
VLNWYRM
5
MLNWNRL
28


C-C′ loop
SPSNQ
6
SPSNQ
29


C′ strand to C′-C′′ loop
FPED
21
FCNG
37


C C′ loop to C′ strand
SPSNQTDKLAAFP
23
SPSNQTEKQAAFC
39


FG loop
LAPKA
15
LHPKA
35









B is an amino acid sequence of from three amino acids to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from BC loop, FG loop, C C′ loop to C′ strand, C strand, D strand, C′ strand to C′—C′′ loop as in table below, or is Glu-Asp, or is absent;
















hPD-1
SEQ ID No
mPD-1
SEQ ID No



















BC Loop
SNTSESF
4
SNWSEDL
27


C Strand
VLNWYRM
5
MLNWNRL
28


C′ strand to C′-C′′ loop
FPED
21
FCNG
37


C C′ loop to C′ strand
SPSNQTDKLAAFP
23
SPSNQTEKQAAFC
39


D Strand
FRVTQ
11
FQIIQ
33


FG loop
LAPKA
15
LHPKA
35









Z is

    
    
        (i). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a human or murine PD1 ectodomain fragment selected from BC loop, D strand, FG loop, G strand, C strand, F strand, C′ strand, C′′ strand, C′′-D loop, C′ strand to C′—C′′ loop, C′ strand to C′′ strand or D strand to DE loop;
        (ii). G-L-Z′
        
            G is an amino acid sequence of from three amino acids to the full length of a peptide sequence of human or murine PD1 ectodomain fragments from D-strand or is absent;
            L is selected from —CO(CH2)n—NH—, or PEG 2-20 KD;
            ‘n’ is an integer selected from 2 to 10, both inclusive; and
            Z′ is one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a human or murine PD1 ectodomain fragment selected from FG loop and G-strand; or
        
        
        (iii). from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a human or murine PD1 ectodomain fragment selected from D-strand, FG loop and G strand, wherein two or more amino acids of the peptide sequence combine together to form a lactam bond between any of the two fragments or within the fragment;
        wherein said fragments are as defined in table below;
    
    

















hPD-1
SEQ ID No
mPD-1
SEQ ID No



















BC Loop
SNTSESF
4
SNWSEDL
27


C Strand
VLNWYRM
5
MLNWNRL
28


C′ Strand
TDKLAAFP
7
TEKQAAFC
30


C′ strand to C′-C′′ loop
FPED
21
FCNG
37


C′ strand to C′′ strand
TDKLAAFPEDRSQP
22
TEKQAAFCNGLSQP
38


C′′ Strand
RSQP
9
LSQP
31


C′′-D loop
GQDCR
10
VQDAR
32


D Strand
FRVTQ
11
FQIIQ
33


F strand
GTYLCGAIS
14
GIYLCGAIS
34


FG loop
LAPKA
15
LHPKA
35


G Strand
QIKE
16
KIEE
36


D strand to DE loop
FRVTQLPNGR
25
FQIIQLPNRH
41









D is up to two peptide sequences arranged in any order each being of from three amino acids up to the full length of a human or murine PD1 ectodomain fragment selected from BC loop, FG loop, C C′ loop to C′ strand as in table below or is absent;
















hPD-1
SEQ ID No
mPD-1
SEQ ID No



















BC Loop
SNTSESF
4
SNWSEDL
27


C C′ loop to C′ strand
SPSNQTDKLAAFP
23
SPSNQTEKQAAFC
39


FG loop
LAPKA
15
LHPKA
35









E is up to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a human or murine PD1 ectodomain fragment selected from BC loop, D strand, FG loop, C C′ loop to C′ strand, G strand, FG loop to G strand or is absent;
















hPD-1
SEQ ID No
mPD-1
SEQ ID No



















BC Loop
SNTSESF
4
SNWSEDL
27


CC′ loop to C′ strand
SPSNQTDKLAAFP
23
SPSNQTEKQAAFC
39


D Strand
FRVTQ
11
FQIIQ
33


FG loop
LAPKA
15
LHPKA
35


G Strand
QIKE
16
KIEE
36


FG loop to G strand
LAPKAQIKE
24
LHPKAKIEE
40









X and X′ are independently selected from lysine, ornithine, diaminopropionic acid, diaminobutyric acid or olefinic amino acid of formula





which is optionally linked with an additional lysine; or

    
    
        X and X′ combine together forming a ring with olefinic amino acid which is optionally linked with an additional lysine; or
        one of the X or X′ is absent or both are absent;
        ‘m’ is an integer selected from 1 to 6, both inclusive;

R1 is selected from group consisting of C2-C20 acyl, PEG 2-20 KD moiety; or absent.

R2 and R3 are independently selected from group consisting of C2-C20 acyl, PEG 2-20 KD, absent or Ra-L′;

        Ra is selected from biotin or maleimido propionic acid;
        L′ is selected from linkers —CO(CH2)n—NH—, —CO(CH2—CH2—O—)n NH or —COCH2(—OCH2—CH2)nNH—; and
        ‘n’ is an integer selected from 2 to 10, both inclusive;

R4 and R5 are independently NH2, or one or both of R4 or R5 are absent.

with the proviso to the compound of Formula I, that in a compound of Formula I as above defined:

        a) up to 5 but not more than 25% of the amino acids may be substituted with other natural or unnatural amino acids;
        b) not more than 30% of the amino acids may be omitted;
        c) in each said peptide sequence up to 2 amino acids may be added individually at any position;
        d) up to 5 but not more than 25% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—);
        e) up to 100% of the amino acids may be D-amino acids;
        f) up to 100% of the amino acids may be in reverse order.
    
    


The embodiment below are illustrative of the present invention and are not intended to limit the claims to the specific embodiments exemplified.
According to one embodiment, specifically provided are compounds of the formula (I) in which Z consists of one said peptide sequence and at least one of A, B, D or E is not absent.
According to another embodiment, specifically provided are compounds of the formula (I) in which A, B, D and E are absent and Z comprises from 2 to 4 same or different peptide sequences.
According to yet another embodiment, specifically provided are compounds of the formula (I) in which Z is a combination of D strand, FG loop and G strand.
According to yet another embodiment, specifically provided are compounds of the formula (I) in which X is lysine and X′ is absent.
According to yet another embodiment, specifically provided are compounds of the formula (I) in which both X and X′ are lysine.
According to yet another embodiment, specifically provided are compounds of the formula (I) in which R2 and R3 are selected from C2-C20 acyl, or Ra-L′; wherein,
Ra is maleimido propionic acid;
L′ is —COCH2(—OCH2—CH2)nNH—; and
‘n’ is an integer selected from 2 to 10, both inclusive.
According to yet another embodiment the invention provides a compound of formula (Ia):




or pharmaceutically acceptable salt thereof;

wherein;

A is an amino acid sequence of from three amino acids to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from FG loop, BC loop, C′ strand, C—C′ loop, C strand, C′ strand to C′—C′′ loop or is absent;

B is an amino acid sequence of from three amino acids to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from BC loop, FG loop, C—C′ loop to C′ strand, C strand, D strand, C′ strand to C′—C′′ loop or is absent;

Z is from one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from D strand, FG loop, G strand, C strand and F strand;

and X is lysine.

According to yet another embodiment, specifically provided are compounds of the formula (Ia) in which A and B are independently an amino acid sequence of from three amino acids to the full length of said BC loop.
According to yet another embodiment, specifically provided are compounds of the formula (Ia) in which A and B are independently the full length of said BC loop.
According to yet another embodiment specifically provided are compounds of the formula (Ia) in which A is BC loop wherein all the amino acids are in reverse order.
According to yet another embodiment, specifically provided are compounds of the formula (Ia) in which Z is D strand-FG loop-G strand.
According to yet another embodiment, specifically provided are compounds of the formula (Ia) in which R1, R2 and R3 are absent.
According to yet another embodiment, specifically provided are compounds of the formula (Ia) in which R3 is C16-acyl.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which up to three amino acids are D-amino acids. Optionally up to 10%, alternatively up to 20%, alternatively up to 50%, alternatively up to 80% or up to 90% of the amino acids are D-amino acids, or in which at least 10%, or at least 20%, or at least 50%, or at least 80% or at least 90% are D-amino acids.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which all amino acids are D-amino acids.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which up to 5 but not more than 25% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—). Alternatively, one or up to 2 or 3 or not more than 20% or 10% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—).
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which all the amino acids are in reverse order or in which a sequence of two or more amino acids are in reverse order, optionally 5 or more or optionally 10 or more, or in which no more than 10, or no more than 5 are in reverse order.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which up to 5 but not more than 25% of the amino acids may be substituted with other natural or unnatural amino acids.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which not more than 30%, alternatively not more than 20%, or not more than 10% of the amino acids may be omitted.
According to yet another embodiment, specifically provided are compounds of the formula (I) or (Ia) in which in each said peptide sequence up to 3 amino acids may be added individually at any position, alternatively up to 2 amino acids, or alternatively up to only one amino acid.
The compounds of the invention may comprise linear or branched peptides, but compounds comprising branched peptide having more than one peptide moiety are preferred and more than one branch may be present.
One embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human or murine PD-1 of at least 5 amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to a C-terminal portion peptide moiety.
Another embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human or PD-1 of at least 5 amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to an intermediate peptide moiety portion which is in turn joined at a further branch point to each of a first C-terminal portion and a second C-terminal portion peptide moiety.
Yet another embodiments of the present invention relates to the compounds as disclosed in the present invention, wherein the compounds are lipidated and/or are glycosylated.
Further embodiment of the present invention relates to the compounds as disclosed in the present invention, wherein the compounds contain a PEG moiety.
Further embodiment of the present invention relates to the compounds as disclosed in the present invention, wherein one or more of the amino acids of the peptide moiety the compounds is substituted with a D-amino acid.
Yet another embodiment of the present invention relates to the compounds as disclosed in the present invention, wherein one or more of the amino acids of the peptide moiety the compounds is substituted with a D-amino acid, wherein D-amino acid is present within 5 amino acids of an N-terminus or the C-terminus of the peptide moiety.
Still yet another embodiment of the present invention relates to the compounds as disclosed in the present invention, wherein one or more of the amino acids of the peptide moiety the compounds is substituted with a D-amino acid, wherein the said D-amino acid is present at the N-terminus or the C-terminus of the peptide moiety.
In one of the embodiment of the present invention there is provided a compound having the ability to inhibit the programmed cell death 1 (PD1) signalling pathway and being capable of reducing PD-L1 or PD-L2 binding to PD-1 and resulting immunosuppressive signalling by PD-1, said compound comprising a peptide moiety of no more than 35 amino acid residues.
In another embodiment of the present invention there is provided a compound having the ability to inhibit the programmed cell death 1 (PD1) signalling pathway and being capable of reducing PD-L1 or PD-L2 binding to PD-1 and resulting immunosuppressive signalling by PD-1, said compound comprising a peptide moiety of no more than 35 amino acid residues, wherein said peptide moiety comprises an ectodomain domain portion of human PD-1 of at least 5 contiguous amino acid residues comprising one of the following three amino acid residue sequences:














from the A strand:



PPT



PTF



TFS



from the BC loop:



SNT



NTS



TSE



SES



ESF



from the C-C′ loop



SPS



PSN



SNQ



from the C′ strand:



TDK



DKL



KLA



LAA



AFP



from the C′′ strand:



RSQ



SQP



from the D strand:



FRV



RVT



VTQ



from the E strand:



DFH



FHM



HMS



MSV



from the F-G loop:



LAP



APK



PKA



from the F-G loop and G strand



KAQ



AQI



C′ strand to C′′ strand



TDK



DKL



KLA



LAA



AAF



AFP



FPE



PED



EDR



DRS



RSQ



SQP



from the A′-B loop and B strand:



NAT



ATF



TFT



FTC



TCS



CSF



from the C strand:



VLN



LNW



NWY



WYR



YRM



from the C-C′ loop to C′ strand:



SNQ



NQT



QTD



TDK



from the C′ strand to C′-C′′ loop:



PED



EDR



from the C′′ strand to C′′ D-loop



QPG



PGQ



GQD



QDC



from the D-E loop:



LPN



PNG



NGR



from the F strand:



GTY



TYL



YLC



LCG



CGA



GAI



AIS



from the G strand:



QIK



IKE



D strand to DE loop



FRY



RVT



VTQ



TQL



LPN



PNG



NGR









or containing a variant of such a ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues, wherein not more than two of said residues are deleted, substituted or modified or not more than two additional amino acid residues are added.

Further embodiment of the present invention provides a compound as disclosed in the present invention, wherein the compound comprising at least one of the sequences:















SEQ ID NO



















PPTFS
2



NATFT
149



FTCSP
150



SNTSESF
4



VLNWY
151



NWYRM
152



SNQTDK
153



TDKLAA
154



KLAAFP
155



PEDSQP
156



EDRSQ
157



GQDCR
10



FRVTQ
11



LPNGR
12



DFHMSV
13



GTYLC
158



CGAIS
159



LAPKA
15



QIKE
16










Another embodiment relates to the compounds of the present invention, wherein no more than one of the amino acid residues included within a said three amino acid residue sequence is deleted, substituted or modified.
Yet another embodiment relates to the compounds of the present invention, wherein said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues.
Yet another embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to a C-terminal portion peptide moiety.
Yet another embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to an intermediate peptide moiety portion which is in turn joined at a further branch point to each of a first C-terminal portion and a second C-terminal portion peptide moiety.
Yet another embodiment of the present invention relates to the branched compounds of the present invention comprising the first N-terminal portion and the second N-terminal portion peptide moiety, wherein said first and/or said second N-terminal portion peptide moiety comprises an ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues comprising one of the following three amino acid residue sequences:














from the BC loop:



SNT



NTS



TSE



SES



ESF



from the C-C′ loop to C′ strand:



SNQ



NQT



QTD



TDK



from the D-E loop:



LPN



PNG



NGR



from the C-C′ loop



SPS



PSN



SNQ



from the C′ strand to C′-C′′ loop:



PED



EDR



from the F-G loop:



LAP



APK



PKA



D strand to DE loop



FRV



RVT



VTQ



TQL



QLP



LPN



PNG



NGR









Yet another embodiment of the present invention relates to the branched compounds of the present invention comprising the first N-terminal portion and the second N-terminal portion peptide moiety, wherein said first and/or said second N-terminal portion peptide moiety comprises an ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues comprising one of the following three amino acid residue sequences:














from the A strand:



PPT



PTF



TFS



from the C strand:



VLN



LNW



NWY



WYR



YRM



from the C′′ strand:



RSQ



SQP



from the E strand:



DFH



FHM



HMS



MSV



from the F-G loop to G strand



KAQ



AQI



from the G strand:



QIK



IKE



from the A′-B loop and B strand:



NAT



ATF



TFT



FTC



TCS



CSF



from the C′ strand:



TDK



DKL



KLA



LAA



AFP



from the D strand:



FRV



RVT



VTQ



from the F strand:



GTY



TYL



YLC



LCG



CGA



GAI



AIS









Yet another embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to a C-terminal portion peptide moiety, wherein said C-terminal portion or the first and/or said second C-terminal portion comprises an ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues comprising one of the following three amino acid residue sequences














from the A strand:



PPT



PTF



TFS



from the C strand:



VLN



LNW



NWY



WYR



YRM



from the C′′ strand:



RSQ



SQP



from the E strand:



DFH



FHM



HMS



MSV



from the F-G loop to G strand



KAQ



AQI



from the G strand:



QIK



IKE



from the A′-B loop and B strand:



NAT



ATF



TFT



FTC



TCS



CSF



from the C′ strand:



TDK



DKL



KLA



LAA



AFP



from the D strand:



FRV



RVT



VTQ



from the F strand:



GTY



TYL



YLC



LCG



CGA



GAI



AIS









Yet another embodiment relates to the compounds of the present invention, said compounds are branched and wherein one or more branches contains a peptide moiety comprising a said ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues, wherein the said compound comprises a first N-terminal portion and a second N-terminal portion peptide moiety, both being joined at a branch point to an intermediate peptide moiety portion which is in turn joined at a further branch point to each of a first C-terminal portion and a second C-terminal portion peptide moiety, wherein one of said first and said second C-terminal portions comprises an ectodomain portion of human PD-1 of at least 5 contiguous amino acid residues comprising one of the following three amino acid residue sequences:














from the BC loop:



SNT



NTS



TSE



SES



ESF



from the C-C′ loop to C′ strand:



SNQ



NQT



QTD



TDK



from the D-E loop:



LPN



PNG



NGR



from the F-G loop to G strand



KAQ



AQI



C′ strand to C′′ strand



TDK



DKL



KLA



LAA



AAF



AFP



FPE



PED



EDR



DRS



RSQ



SQP



from the C-C′ loop



SPS



PSN



SNQ



from the C′-C′′ loop:



PED



EDR



from the F-G loop:



LAP



APK



PKA



D strand to DE loop



FRV



RVT



VTQ



TQL



LPN



PNG



NGR









In one of the embodiment of the present invention there is provided a compound having the ability to inhibit the programmed cell death 1 (PD1) signalling pathway and being capable of reducing PD-L1 or PD-L2 binding to PD-1 and resulting immunosuppressive signalling by PD-1, said compound comprising a peptide moiety of no more than 35 amino acid residues.
Further embodiment of the present invention provides a compound as disclosed in the present invention, wherein the compound comprising at least one of the sequences selected from individual species as in table below:
















hPD-1
mPD-1
rat PD-1
Dog PD-1
Horse PD-1







A Strand
PPTFS
SLTFY
QLSWQ
PLTFS
PLTFS



(SEQ ID NO: 2)
(SEQ ID NO: 160)
(SEQ ID NO: 163)
(SEQ ID NO: 182)
(SEQ ID NO: 201)


B strand
ATFTCSF
ATFTCSL
ATFTCSF
ATFTCSL
ATFTCSF



(SEQ ID NO: 3)
(SEQ ID NO: 26)
(SEQ ID NO: 164)
(SEQ ID NO: 183)
(SEQ ID NO: 202)


BC Loop
SNTSESF
SNWSEDL
SNWSEDL
ADIPDSF
SNTSEHF



(SEQ ID NO: 4)
(SEQ ID NO: 27)
(SEQ ID NO: 165)
(SEQ ID NO: 184)
(SEQ ID NO: 203)


C Strand
VLNWYRM
MLNWNRL
KLNWYRL
VLNWYRL
VLNWYRM



(SEQ ID NO: 5)
(SEQ ID NO: 28)
(SEQ ID NO: 166)
(SEQ ID NO: 185)
(SEQ ID NO: 204)


C-C′ loop
SPSNQ
SPSNQ
SPSNQ
SPRNQ
SPSNQ



(SEQ ID NO: 6)
(SEQ ID NO: 29)
(SEQ ID NO: 167)
(SEQ ID NO: 186)
(SEQ ID NO: 205)


C′ Strand
TDKLAAFP
TEKQAAFC
TEKQAAFC
TDKLAAFQ
TDKLAAFP



(SEQ ID NO: 7)
(SEQ ID NO: 30)
(SEQ ID NO: 168)
(SEQ ID NO: 187)
(SEQ ID NO: 206)


C′-C′′ loop
ED
NG
NG
ED
ED



(SEQ ID NO: 8)






C′′ Strand
RSQP
LSQP
YSQP
RIEP
SSQP



(SEQ ID NO: 9)
(SEQ ID NO: 31)
(SEQ ID NO: 169)
(SEQ ID NO: 188)
(SEQ ID NO: 207)


C′′-D loop
GQDCR
VQDAR
VRDAR
GRDRR
GRSGR



(SEQ ID NO: 10)
(SEQ ID NO: 32)
(SEQ ID NO: 170)
(SEQ ID NO: 189)
(SEQ ID NO: 208)


D Strand
FRVTQ
FQIIQ
FQIVQ
FRVMR
FRVTR



(SEQ ID NO: 11)
(SEQ ID NO: 33)
(SEQ ID NO: 171)
(SEQ ID NO: 190)
(SEQ ID NO: 209)


D-E loop
LPNGR
LPNRH
LPNGH
LPNGR
LPNGR



(SEQ ID NO: 12)
(SEQ ID NO: 161)
(SEQ ID NO: 172)
(SEQ ID NO: 191)
(SEQ ID NO: 210)


E strand
DFHMSV
DFHMNI
DFHMNI
DFHMSI
DFHMSV



(SEQ ID NO: 13)
(SEQ ID NO: 162)
(SEQ ID NO: 173)
(SEQ ID NO: 192)
(SEQ ID NO: 211)


F strand
GTYLCGAIS
GIYLCGAIS
GIYLCGAIS
GIYLCGAIY
GIYLCGAIS



(SEQ ID NO: 14)
(SEQ ID NO: 34)
(SEQ ID NO: 174)
(SEQ ID NO: )
(SEQ ID NO: 212)


FG loop
LAPKA
LHPKA
LPPKA
LPPNT
LPPKT



(SEQ ID NO: 15)
(SEQ ID NO: 35)
(SEQ ID NO: 175)
(SEQ ID NO: 194)
(SEQ ID NO: 213)


G Strand
QIKE
KIEE
QIKE
QINE
QINE



(SEQ ID NO: 16)
(SEQ ID NO: 36)
(SEQ ID NO: 176)
(SEQ ID NO: 195)
(SEQ ID NO: 214)


C′ strand to
FPED
FCNG
FCNG
FQED
FPED


C′-C′′ loop
(SEQ ID NO: 21)
(SEQ ID NO: 37)
(SEQ ID NO: 177)
(SEQ ID NO: 196)
(SEQ ID NO: 215)


C C′ loop
SPSNQTDKLAAFP
SPSNQTEKQAAFC
SPSNQTEKQAAFC
SPRNQTDKLAAFQ
SNQTDKLAAFP


to C′ strand
(SEQ ID NO: 23)
(SEQ ID NO: 39)
(SEQ ID NO: 178)
(SEQ ID NO: 197)
(SEQ ID NO: 216)


C′ strand to
TDKLAAFPEDRSQP
TEKQAAFCNGLSQP
TEKQAAFCNGYSQP
TDKLAAFQEDRIEP
TDKLAAFPEDSSQP


C′′ strand
(SEQ ID NO: 22)
(SEQ ID NO: 38)
(SEQ ID NO: 179)
(SEQ ID NO: 198)
(SEQ ID NO: 217)


D strand to
FRVTQLPNGR
FQIIQLPNRH
FQIVQLPNGH
FRVMRLPNGR
FRVTRLPNGR


DE loop
(SEQ ID NO: 25)
(SEQ ID NO: 41)
(SEQ ID NO: 180)
(SEQ ID NO: 199)
(SEQ ID NO: 218)


FG loop to
LAPKAQIKE
LHPKAKIEE
LPPKAQIKE
LPPNTQINE
LPPKTQINE


G strand
(SEQ ID NO: 24)
(SEQ ID NO: 40)
(SEQ ID NO: 181)
(SEQ ID NO: 200)
(SEQ ID NO: 219)









Below are the representative compounds, which are illustrative in nature only and are not intended to limit to the scope of the invention.












Comp.




No.
Sequence
Structure

















1.
SNTSESF-NH2 (SEQ ID NO: 42)






 


2.
CH3CO-SNTSESF-NH2 (SEQ ID NO: 43)






 


3.
SNQTDKLAAFPEDSQPGQD-NH2 (SEQ ID NO: 44)






 


4.
EDRSQPGQDCR-NH2 (SEQ ID NO: 45)






 


5.
CGAISLAPKAQIKE-NH2 (SEQ ID NO: 46)






 


6.
FRVTQK(SNTSESF)FRVTQAhxLAPKAQIKE-NH2 Ahx = 6-aminohexanoic acid (SEQ ID NO: 47)






 


7.
FRVTQK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 48)






 


8.
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 49)






 


9.
SNQTDK (SNQTDK) FRVTQ LAPKAQIKE-NH2 (SEQ ID NO: 50)






 


10.
SNQTDK (SNQTDK) VLNWYRM LAPKAQIKE-NH2 (SEQ ID NO: 51)






 


11.
SNTSESFK(SNQTDK)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 52)






 


12.
SNTSESFK(SNQTDK)FRVTQK(LAP)AQIKE-NH2 (SEQ ID NO: 53)






 


13.
sntsesfk(sntsesf)frvtqlapkaqike-NH2 All D-amino acids (SEQ ID NO: 54)






 


14.
EKIQAKPAYWNLVK(KDTQNS)DTQNS (SEQ ID NO: 55)






 


15.
Biotin-Ahx-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 56)






 


16.
C6 lipid-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 57)






 


17.
Ac-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 58)






 


18.
SNTSESFK(NH2-[PEG]11-CO-SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 59)






 


19.
SNTSESFK(SNTSESF)-NH-[PEG]11-CO-)LAPKAQIKE-NH2 (SEQ ID NO: 60)






 


20.
SNTSESFK(CH3(CH2)4CO-SNTSESF)FRVTQLAPKAQIKE-NH2 Lipid in branch (SEQ ID NO: 61)






 


21.
CH3(CH2)4CO-SNTSESFK(CH3(CH2)4CO- SNTSESF)FRVTQLAPKAQIKE-NH2 Lipid on both Branch & N-termini (SEQ ID NO: 62)






 


22.










 


23.










 


24.










 


25.
SNTSESFK(SNTSESF)FRVTQLAQIKE-NH2 (SEQ ID NO: 66)






 


26.
SNTSESFFRVTQLAPKAQIKE-NH2 (SEQ ID NO: 67)






 


27.
SNTSESFKFRVTQLAPKAQIKE-NH2 (SEQ ID NO: 68)






 


28.
SNTSESFKSNTSESFFRVTQLAPKAQIKE-NH2 (SEQ ID NO: 69)






 


29.
SNTSESFK(SNTSESF)-NH2 (SEQ ID NO: 70)






 


30.
SNTSESFK(SNTSESF)LAPKAQIKE-NH2 (SEQ ID NO: 71)






 


31.
SNTSESFK(SNTSESF)FRVTQKAQIKE-NH2 (SEQ ID NO: 72)






 


32.
SNTSESFK(SNTSESF)KAQIKE-NH2 (SEQ ID NO: 73)






 


33.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)E-NH2 (SEQ ID NO: 74)






 


34.
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE-NH2 (SEQ ID NO: 75)






 


35.
SNTSESFK(SNTSESF)FRVTQK(LAP)KAQIKE-NH2 (SEQ ID NO: 76)






 


36.
SNTSESFK(SNTSESF)FRVTQLAK(PKA)QIKE-NH2 (SEQ ID NO: 77)






 


37.
SNTSESFK(LAP)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 78)






 


38.
LAPK(LAP)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 79)






 


39.
LAPKAQIKE-NH2 (SEQ ID NO: 80)






 


40.
SNTSESFK(SNTSESF)FK(CH3(CH2)14CO))VTQLAPKAQIKE-NH2 Arg in D strand replaced by Lys (SEQ ID NO: 81)






 


41.
SNTSESFK(SNTSESF)FRVTQLAP-NH2 (SEQ ID NO: 82)






 


42.
SNTSESFFRVTQK(SNTSESF)LAPKAQIKE-NH2 (SEQ ID NO: 83)






 


43.
FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 84)






 


44.
SNTSESFK(SNTSESF)FK(CH3(CH2)6CO)VTQLAPKAQIKE-NH2 Arg in D strand replaced by Lys (SEQ ID NO: 85)






 


45.
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)6CO)AQIKE-NH2 (SEQ ID NO: 86)






 


46.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)E (SEQ ID NO: 87)






 


47.
SNTSESFK(sntsesf)FRVTQLAPKAQIKE D-amino acids in the branch (SEQ ID NO: 88)






 


48.
EKIQAKPALQTVRFK(FSESTNS)FSESTNS-NH2 (SEQ ID NO: 89)






 


49.
ekiqakpalqtvrfk(fsestns)fsestns-NH2 Retro inverso(All D-amino acid) (SEQ ID NO: 90)






 


50.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG-20KD)E-NH2 (SEQ ID NO: 91)






 


51.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG-20KD)E-NH2 (SEQ ID NO: 92)






 


52.
SNTSESFK(SNTSESF)FRVTQLAPK(PEG 20 KD)AQIKE-NH2 (SEQ ID NO: 93)






 


53.
SNTSESFK(SNTSESF)FK(mini PEG)VTQLAPKAQIKE-NH2 Arg in D strand replaced by Lys (SEQ ID NO: 94)






 


54.
SNTSESFK(SNTSESF)FRVTQLAPK(PEG 10KD)AQIKE-NH2 (SEQ ID NO: 95)






 


55.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG20KD)E-NH2 (SEQ ID NO: 96)






 


56.
SNTSESFK(SNTSESF)FK(CH3CO)VTQLAPKAQIKE-NH2 (SEQ ID NO: 97)






 


57.
SNTSESFK(SNTSESF)FRVTQLAPK(CH3CO)AQIKE-NH2 (SEQ ID NO: 98)






 


58.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3CO)E-NH2 (SEQ ID NO: 99)






 


59.
SNTSESFK(SNTSESF)FRVTQLAPK(CH3—(CH2)4—CO)AQIKE-NH2 (SEQ ID NO: 100)






 


60.
Biotin-Ahx-sntsesfk(sntsesf)frvtqlapkaqike-NH2 All D Amino acids (SEQ ID NO: 101)






 


61.
Biotin-Ahx- EKIQAKPAYWNLVK(KDTQNS)DTQNS-NH2 (SEQ ID NO: 102)






 


62.
SNTSESFK(SNTSESF)FRVTQLAPE*AQIK*E-NH2 (SEQ ID NO: 103) Lactam bond formed between asterisked (*) amino acids






 


63.
SNTSESFK(SNTSESF)FK*VTQE*APKAQIKE-NH2 (SEQ ID NO: 104) Lactam bond formed between asterisked (*) amino acids






 


64.
SNTSESFK(SNTSESF)FRVTE*LAPK*AQIKE (SEQ ID NO: 105) Lactam bond formed between asterisked (*) amino acids






 


65.
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)E (SEQ ID NO: 106)






 


66.
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)E (SEQ ID NO: 107)






 


67.
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)10CO)E at Lys (SEQ ID NO: 108)






 


68.
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)4CO)E (SEQ ID NO: 109)






 


69.
SNWSEDLK(SNWSEDL)FQIIQLHPKAKIEE-NH2 (SEQ ID NO: 110)






 


70.
EDK(ED)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 111)






 


71.
SNTSESFK(ED)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 112)






 


72.
LAPKAK(ED)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 113)






 


73.
SNQTDKK(ED)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 114)






 


74.
SNQTDK(SNQTDK)GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 115)






 


75.
SNQTDKK(VLNWYRM)GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 116)






 


76.
EDK(VLNWYRM)GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 117)






 


77.
SNTSESFK(SNTSESF)GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 118)






 


78.
SNTSESFK(SNTSESF)VLNWYRMLAPKAQIKE-NH2 (SEQ ID NO: 119)






 


79.
VLNWYRMK(SNQTDK)GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 120)






 


80.
GIYLCGAISLAPKAQIKE-NH2 (SEQ ID NO: 121)






 


81.
SNQTDKK(SNQTDK)FRVTQ LAPKAQIKE-NH2 (SEQ ID NO: 122)






 


82.
SNWSEDLK(SNWSEDOFQIIQLHPK(CH3(CH2)14CO)AKIEE-NH2 (SEQ ID NO: 123)






 


83.
SNTSESFK(SNTSESF)FRVTQLAPK(MPA-NH—CH2—CH2—O—CH2—CH2—O—CO)AQIKE-NH2 (SEQ ID NO: 124)






 


84.
SNTSESFK(sNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 125)






 


85.
sNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 126)






 


86.
sNTSESFK(sNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 127)






 


87.
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(MPA-NH—CH2—CH2—O—CH2—CH2—O—CO)E-NH2 (SEQ ID NO: 128)






 


88.
SΨ[CH2NH]NTSESFK(SΨ[CH2NH]NTSESF) FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 129)






 


89.
SnTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 D-Asn at N-terminus (SEQ ID NO: 130)






 


90.
SNTSESFK(SnTSESF)FRVTQLAPKAQIKE-NH2 D-Asn in the branch (SEQ ID NO: 131)






 


91.
SNWSEDLK(SNWSEDL)FQIIQLHPK(MPA-NH—CH2—CH2—O—CH2—CH2—O—CO)AKIEE-NH2 (SEQ ID NO: 132)






 


92.
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE (SEQ ID NO: 133)






 


93.
SΨ[CH2NH]NTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 134)






 


94.
SNTSESFK(SΨ[CH2NH]NTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 135)






 


95.
SNΨ[CH2NH]TSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 136)






 


96.
SNTSESFK(SNΨ[CH2NH]TSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 137)






 


97.
SNΨ[CH2NH]TSESFK(SNΨ[CH2NH]TSESF)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 138)






 


98.
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE C-terminus acid (SEQ ID NO: 139)






 


99.
SNTSESF-Orn-(SNTSESF)KAQIKE-NH2 (SEQ ID NO: 140)






 


100. 
SNTSESF-Dap-(SNTSESF)KAQIKE-NH2 (SEQ ID NO: 141)






 


101. 
SNTSESF-Dab-(SNTSESF)KAQIKE-NH2 (SEQ ID NO: 142)






 


102. 
SNTSESFK(SNTSESF)FRVTQLAPK*IAQE*KE-NH2 (SEQ ID NO: 143) Lactam bond formed between asterisked (*) amino acids






 


103. 
SNTSESFK(SNTSESF)K*RVTE*LAPKAQIKE-NH2 (SEQ ID NO: 144) Lactam bond formed between asterisked (*) amino acids






 


104.
SNTSESFK(SNTSESF)FRK*TQLE*PKAQIKE-NH2 (SEQ ID NO: 145) Lactam bond formed between asterisked (*) amino acids






 


105. 
SNTSESFK(SNTSESF)FRVE*QLAK*PAQIKE-NH2 (SEQ ID NO: 146) Lactam bond formed between asterisked (*) amino acids






 


106.
LAPKA-NH2 (SEQ ID NO: 147)






 


107. 
LAPKA(SNQTDK)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 148)












Corresponds to Lysine(K)






Compounds of the invention may comprise peptide moieties that are lipidated, PEGylated and/or are glycosylated. One or more of the amino acids of the peptide may be a D-amino acid with a view to increasing stability in vivo.
The invention includes compounds as described above, formulated for pharmaceutical administration, typically by combination with a pharmaceutically acceptable carrier or diluent.
The invention includes compounds as described above for use in a method of medical treatment, e.g. in the treatment of cancer, treatment of bacterial and viral infections
The invention further includes a method of screening compounds for ability to block interaction between PD-1 and a PD-1 ligand, comprising contacting candidate compounds of the kind described above with PD-1 or a PD-1 ligand binding portion of PD-1 and with a PD-1 ligand or a PD-1 binding portion of a PD-1 ligand, and measuring the extent of PD-1/PD-1 ligand binding.
As indicated above, compounds of the invention may be peptides modified by PEGylation. Polymers have been used extensively to improve the pharmacokinetics and pharmacodynamics and hence, drug performance of drugs such as peptides, proteins, and small molecules. The most widely used polymer for pharmaceutical applications is polyethylene glycol (“PEG”). “PEGylation” is the process by which the drug is chemically modified to result in the covalent attachment (“coupling”) of one or more PEG molecules to the drug (depending on how many sites are available on the drug to interact with, and be conjugated to PEG). The improved pharmacological and biological properties associated with PEGylation of drugs are well known in the pharmaceutical art. For example, PEGylation can increase therapeutic efficacy by means including, but not limited to, reducing degradation by proteolytic enzymes and thereby increasing drug concentration; increasing the size of the drug to which it is attached, thereby improving drug biodistribution; and shielding antigenic epitopes in reducing immunogenicity where desired. By increasing the therapeutic efficacy, the frequency of dosing and/or the amount of drug need to achieve a therapeutic effect may be reduced.
PEG, as a linear polyether, has the general structure: HO—(CH2—CH2O) n-CH2CH2—OH where n can typically range from about 10 to about 2000.
PEG may be modified which includes H2N—(CH2—CH2O) n-CH2CH2—COOH where n can typically range from about 10 to about 2000.
Many of the PEG modifications, in forming PEG derivatives (PEG and PEG derivatives are known in the art as “PEG”), are directed to the end groups (“functionalities”) in adding or varying their chemically reactive functionalities to be used to covalently attach the PEG molecule to a drug. Various PEG derivatives are well known in the art. To couple PEG to a drug, typically a functionality of the PEG molecule needs to be activated so as to be chemically reactive. The type and specificity of functionality is based upon the choice of chemically reactive group on the drug to which the PEG molecule is to be coupled. Most commonly for proteins and peptides, the chemically reactive group is present on an amino acid which may be an internal amino acid having a side chain with a free chemically reactive group (e.g. including, but not limited to, lysine, cysteine, glutamic acid, serine, threonine, and the like), the N-terminal amino acid (having a N-terminal amine group, or a side chain amine group, as a free chemically reactive group), a C-terminal amino acid (having a C-terminal carboxylic acid, or side chain amine group as a free chemically reactive group) or a combination thereof. Of the sites of a peptide to be coupled to PEG, most frequently chosen is the N-terminal amine group (“alpha amine”) of the peptide's N-terminal amino acid, and the epsilon amine group (“epsilon amine”) of a lysine (a lysine found within the amino acid sequence which is not the N-terminal amino acid or the C-terminal amino acid of the peptide) or an epsilon amine group of lysine when the lysine is present in a peptide as a N-terminal amino acid or as a C-terminal amino acid.
Where there are multiple lysine groups in the peptide and multiple binding of PEG molecules is not desired, one can incorporate into its amino acid sequence at selected amino acid positions during synthesis, one or more amine groups (e.g. one or more of an alpha amine or an epsilon amine(s)) which is blocked with a chemical protecting agent from chemically reactive with amine-reactive functionality of PEG during PEGylation, thereby leaving available for PEGylation only the free amine group (s) in selected amino acid positions (through chemical modification) of the synthetic peptide to be covalently coupled to PEG.
Preferred polyols for use in PEGylation comprise a water-soluble poly (alkylen oxide) polymer, and can have a linear or branched chain. The term “polyol” preferably refers to a water-soluble, polyalcohol which may include, but is not limited to, polyethylene glycol (“PEG”), polypropylene glycol (“PPG”), diethylene glycol, triethylene glycol, ethylene glycol, dipropylene glycol, copolymers comprising PPG (e.g., ethylene glycol/PPG), copolymers comprising PEG (e.g., PEG/PPG), mPEG (monomethoxy-poly(ethylene)glycol), and the like. Suitable polyols encompass both homopolymers and copolymers, and further may have a structure comprising a branched structure or linear structure as known to those skilled in the art.
Preferably, the polymer is substantially non-toxic when used for in vivo applications in individuals. In a preferred embodiment, the polymer has a molecular weight in the range between about 200 daltons to about 40,000 daltons; and in a more preferred embodiment, the polymer has a molecular weight range between about 400 daltons to about 10,000 daltons. A preferred polymer for application in the present invention comprises a polyethylene glycol (“PEG”), and a more preferred polymer for application in the present invention comprises a polyethylene glycol having a molecular weight range, wherein the molecular weight range is no less than about 400 Daltons and is no more than about 20,000 daltons.
As described previously herein, there are various forms of PEG that typically differ in the end groups or chemically reactive functional groups to be used to covalently attach the PEG molecule to a drug. Various PEGs are well known in the art. A preferred PEG, for use in coupling to one or more unprotected amine groups of the synthetic peptide in accordance with the present invention, has a chemically reactive group (e.g. “functionality”) which can be used covalently couple PEG to the to one or more unprotected amine groups. PEG may include but are not limited to, PEG-tresylate, heterobifunctional PEG, PEG dichlorotriazine, PEG succinimidyl carbonate, PEG benzotriazole carbonate, PEG p-nitrophenyl carbonate, PEG trichlorophenyl carbonate, PEG carbonylimidazole, PEG succinimidyl succinate, mPEG succinimidyl propionate, mPEG succinimidyl butanoate, PEG butyraldehyde, mPEG-propionaldehyde, PEG aldehyde, PEG-acetaldehyde, PEG acetaldehyde diethyl acetal, PEG carboxylic acid, mPEG phenyl ether succinimidyl carbonates, mPEG benzamide succinimidyl carbonates, PEG thioester, linear PEG, branched PEG, and linear forked PEG.
In addition, compounds of the invention may be combined with carrier molecules such as dendrimers, e.g. pAMAM dendrimers, liposomes, micro-particles and nanoparticles such as polycyanoacrylate nanoparticles, and these also may be PEGylated.
Compounds similar to those of the invention but where modifications are made that render the compound less active in blocking PD-1 signalling pathway may be useful, for instance as controls in screening protocols. Amongst such compounds are expected to be analogues of any of the compounds of the invention described herein where all or most of the amino acids are D-amino acids, analogues of any of the compounds of the invention described herein where all or most of the amino acids are reversed in sequence (retro-compounds) and analogues of such retro-compounds where all or most of the amino acids are D-amino acids, retroinverso-compounds.
Further embodiment of the present invention relates to the compounds as disclosed in the present invention, wherein one or more of the amino acids of the peptide moiety the compounds is substituted with a D-amino acid.
The compounds as disclosed in the present invention are formulated for pharmaceutical administration.
Another embodiment of the present invention provided a pharmaceutical composition comprising the compound as disclosed, and a pharmaceutically acceptable carrier or diluent.
Yet another embodiment of the present invention provides use of the compounds as disclosed in the present invention for the preparation of a medicament for the treatment of cancer.
Yet another embodiment of the present invention provides use of the compounds as disclosed in the present invention for the preparation of a medicament for the treatment of bacterial and viral infection.
Yet another embodiment of the present invention provides a method of treatment of cancer, wherein the method comprises administration of an effective amount of the compound and/or peptides of the present invention to the subject in need thereof. Yet another embodiment of the present invention provides a method for inhibiting growth of tumour cells and/or metastasis by administering an effective amount of the compound of the present invention to the subject in need thereof.
The said tumour cells include cancer such as but not limited to melanoma, renal cancer, prostate cancer, breast cancer, colon cancer and lung cancer, bone cancer, pancreatic cancer, skin cancer, cancer of the head or neck, cutaneous or intraocular malignant melanoma, uterine cancer, ovarian cancer, rectal cancer, cancer of the anal region, stomach cancer, testicular cancer, uterine cancer, carcinoma of the fallopian tubes, carcinoma of the endometrium, carcinoma of the cervix, carcinoma of the vagina, carcinoma of the vulva, Hodgkin's Disease, non-Hodgkin's lymphoma, cancer of the esophagus, cancer of the small intestine, cancer of the endocrine system, cancer of the thyroid gland, cancer of the parathyroid gland, cancer of the adrenal gland, sarcoma of soft tissue, cancer of the urethra, cancer of the penis, chronic or acute leukemias including acute myeloid leukemia, chronic myeloid leukemia, acute lymphoblastic leukemia, chronic lymphocytic leukemia, solid tumours of childhood, lymphocytic lymphoma, cancer of the bladder, cancer of the kidney or ureter, carcinoma of the renal pelvis, neoplasm of the central nervous system (CNS), primary CNS lymphoma, tumour angiogenesis, spinal axis tumour, brain stem glioma, pituitary adenoma, Kaposi's sarcoma, epidermoid cancer, squamous cell cancer, T-cell lymphoma, environmentally induced cancers including those induced by asbestos, and combinations of said cancers.
Still yet another embodiment of the present invention provides a method of treatment of infectious disease via immunopotentiation caused by inhibition of immunosuppressive signal induced by PD-1, PD-L1, or PD-L2, wherein the method comprises administration of an effective amount of the compound and/or peptides of the present invention to the subject in need thereof.
The infectious disease includes but not limited to HIV, Influenza, Herpes, Giardia, Malaria, Leishmania, the pathogenic infection by the virus Hepatitis (A, B, & C), herpes virus (e.g., VZV, HSV-I, HAV-6, HSV-II, and CMV, Epstein Barr virus), adenovirus, influenza virus, flaviviruses, echovirus, rhinovirus, coxsackie virus, cornovirus, respiratory syncytial virus, mumps virus, rotavirus, measles virus, rubella virus, parvovirus, vaccinia virus, HTLV virus, dengue virus, papillomavirus, molluscum virus, poliovirus, rabies virus, JC virus and arboviral encephalitis virus, pathogenic infection by the bacteria chlamydia, rickettsial bacteria, mycobacteria, staphylococci, streptococci, pneumonococci, meningococci and conococci, klebsiella, proteus, serratia, pseudomonas, E. coli, legionella, diphtheria, salmonella, bacilli, cholera, tetanus, botulism, anthrax, plague, leptospirosis, and Lyme's disease bacteria, pathogenic infection by the fungi Candida (albicans, krusei, glabrata, tropicalis, etc.), Cryptococcus neoformans, Aspergillus (fumigatus, niger, etc.), Genus Mucorales (mucor, absidia, rhizophus), Sporothrix schenkii, Blastomyces dermatitidis, Paracoccidioides brasiliensis, Coccidioides immitis and Histoplasma capsulatum, and pathogenic infection by the parasites Entamoeba histolytica, Balantidium coli, Naegleriafowleri, Acanthamoeba sp., Giardia lambia, Cryptosporidium sp., Pneumocystis carinii, Plasmodium vivax, Babesia microti, Trypanosoma brucei, Trypanosoma cruzi, Leishmania donovani, Toxoplasma gondi, Nippostrongylus brasiliensis. 
The compounds of the present invention are for use in a method of medical treatment.
The compounds of the present invention may be used as single drugs or as a pharmaceutical composition in which the compound is mixed with various pharmacologically acceptable materials.
The pharmaceutical composition is usually administered by a parenteral administration route, but can be administered by oral or inhalation routes. Examples of the parenteral administration include administration by injection, and percutaneous, transmucosal, transnasal and transpulmonary administrations.
The injectable materials include a solution, a suspension, and a solid injection that is dissolved or suspended in a solvent before use.
The injection is used after one or more active ingredients are dissolved, suspended or emulsified in a solvent. Examples of the solvent include water-soluble solvents (e.g., distilled water, physiological saline and Ringer's solution), oil solvents (e.g., vegetable oils such as olive oil, sesame oil, cotton oil and corn oil, and alcohols such as propylene glycol, polyethylene glycol and ethanol), and combinations thereof.
Further, the injection may contain a stabilizer (e.g., human serum albumin), solubilizing agent (e.g., polyethylene glycol, propylene glycol, D-mannitol, trehalose, benzyl benzoate, ethanol, trisaminomethane, cholesterol, triethanolamine, sodium carbonate, sodium citrate, sodium salicylate and sodium acetate), suspending agent (e.g., surfactants such as stearyl triethanolamine, sodium lauryl sulfate, lauryl aminopropionic acid, lecithin, benzalkonium chloride, benzethonium chloride and glyceryl monostearate; hydrophilic polymers such as polyvinyl alcohol, polyvinyl pyrrolidone, sodium carboxymethyl cellulose, methyl cellulose, hydroxymethyl cellulose, hydroxyethyl cellulose and hydroxypropyl cellulose; polysorbates; and polyoxyethylene hardened castor oil), emulsifier, soothing agent (e.g., benzyl alcohol), tonicity agent (e.g., sodium chloride, glycerin, D-mannitol, D-sorbitol and glucose), buffer, preservative (e.g., methylparaben, propylparaben, benzyl alcohol, chlorobutanol and phenol), antiseptic (e.g., paraoxybenzoic esters, chlorobutanol, benzyl alcohol, phenethyl alcohol, dehydroacetic acid and sorbic acid), antioxidant (e.g., sulfite and ascorbate) and dispersant (e.g., Polysorbate 80, Polyoxyethylene hardened castor oil 60, ethylene glycol, carboxymethyl cellulose and sodium alginate).
These injections may be prepared by known methods in the formulation technology field, such as by a method described in various Pharmacopoeia. They are prepared, for example, through a sterilization process at the final stage, or by aseptic manipulation. It is also possible to use an aseptic solid formulation, such as a freeze dried product, wherein the aseptic solid formulation is prepared and dissolved in aseptic or sterilized distilled water for injection or other solvents before use.
These parenteral solutions may be supplied in a vessel with a standard capacity, such as a plastic or glass vial, ampoule, syringe and injector, or in a vessel with a large capacity, such as a bottle.
The dosage of the compounds of the present invention varies depending on age, weight, symptom, therapeutic efficacy, dosing regimen and/or treatment time. Generally, they may be administered by a parenteral route (preferably intravenous administration) in an amount of 1 ng to 100 mg per time, from once a couple of days, once 3 days, once 2 days, once a day to a couple of times a day, in the case of an adult, or continuously administered by intravenous administration from 1 to 24 hours a day. Since the dosage is affected by various conditions, an amount less than the above dosage may sometimes work well enough, or higher dosage may be required in some cases.
Parenteral administration by injection includes all forms of injections, and also includes intravenous fluids. For example, it includes intramuscular injections, subcutaneous injections, intradermal injections, intraarterial injections, intravenous injections, intraperitoneal injections, injections to spinal cavity, and intravenous drops.
The compounds of the present invention may be administered in combination with other drugs for (1) complementation and/or enhancement of prevention and/or therapeutic efficacy of the preventive and/or therapeutic drug of the present invention, (2) dynamics, absorption improvement, dosage reduction of the preventive and/or therapeutic drug of the present invention, and/or (3) reduction of the side effects of the preventive and/or therapeutic drug of the present invention.
A concomitant medicine comprising the peptide of the present invention and other drug may be administered as a combination preparation in which both components are contained in a single formulation, or administered as separate formulations. The administration by separate formulations includes simultaneous administration and administration with some time intervals. In the case of the administration with some time intervals, the compound of the present invention can be administered first, followed by another drug or another drug can be administered first, followed by the compound of the present invention. The administration method of the respective drugs may be the same or different.
The dosage of the other drug can be properly selected, based on a dosage that has been clinically used. The compounding ratio of the compound of the present invention and the other drug can be properly selected according to age and weight of a subject to be administered, administration method, administration time, disorder to be treated, symptom and combination thereof. For example, the other drug may be used in an amount of 0.01 to 100 parts by mass, based on 1 part by mass of the compound of the present invention. The other drug may be a combination of two or more kind of arbitrary drugs in a proper proportion. The other drug that complements and/or enhances the preventive and/or therapeutic efficacy of the compound of the present invention includes not only those that have already been discovered, but those that will be discovered in future, based on the above mechanism.
Diseases on which this concomitant use exerts a preventive and/or therapeutic effect are not particularly limited. The concomitant medicine can be used for any diseases, as long as it complements and/or enhances the preventive and/or therapeutic efficacy of the compound of the present invention.
Particularly, since the compound of the present invention exhibits an effect of stimulating or proliferating lymphoid cells, the concomitant use is able to reduce a dosage of chemotherapeutics commonly used or an irradiation dosage in radio therapy. This results in suppression of side effects that accompany with chemotherapy and radio therapy.
The compound of the present invention can be used with an existing chemotherapeutic concomitantly or in a mixture form. Examples of the chemotherapeutic include an alkylation agent, nitrosourea agent, antimetabolite, anticancer antibiotics, vegetable-origin alkaloid, topoisomerase inhibitor, hormone drug, hormone antagonist, aromatase inhibitor, P-glycoprotein inhibitor, platinum complex derivative, other immunotherapeutic drugs and other anticancer drugs. Further, it can be used with a cancer treatment adjunct, such as a leucopenia (neutrophenia) treatment drug, thrombocytopenia treatment drug, antiemetic and cancer pain intervention drug, concomitantly or in a mixture form.
The compound of the present invention can be used with other immunomodulators concomitantly or in a mixture form. Examples of the immunomodulator include various cytokines. Examples of the cytokines that stimulates immune responses include GM-CSF, M-CSF, G-CSF, interferon-α, β, or γ, IL-1, IL-2, IL-3 and IL-12.
The concomitant use of the compound of the present invention and a cancer antigen is able to give an additive or synergetic enhancement effect. Examples of the cancer antigen include HLA-A1 and HLA-A2 derived peptides derived from MAGE-1 or MAGE-3 of malignant melanoma, MART-1 and gp100, HER2/neu peptide of breast cancer and ovarian cancer, MUC-1 peptide of adenocarcinoma and NY-ESO-1 of metastatic cancer.
Since a compound of the present invention binds to its ligand molecule strongly and specifically, the labelling agent thereof is able to be used as a test or diagnostic drug or a research reagent for diseases in which the cell surface functional molecule or the ligand molecule is involved.
Examples of the labelling agent that can label the compounds of the present invention include radioisotopes, enzymes, fluorescent materials, luminous materials, ultraviolet absorption materials.
When a compound of the present invention is used in an enzyme-linked immunosorbent assay (EIA) method, it can be used by labelling it with enzymes, such as alkali phosphatase, β-galactosidase, peroxidase, microperoxidase, glucose oxidase, glucose-6-phosphate dehydrogenase, acetylcholinesterase, malate dehydrogenase and luciferase.
When a compound of the present invention is used in a radioimmunoassay (RIA) method, it can be used by labelling it with a radioisotope, such as 131I, 125I, 99mTc, 355S, 32P, 14C and 3H.
When a compound of the present invention is used in a fluorescence immunoassay (FIA) method, it can be used by labelling it with a fluorescent material, such as fluorescein, dansyl, fluorescamine, coumarin, naphthylamine, fluorescein isothiocyanate, rhodamine, rhodamine X isothiocyanate, sulforhodamine 101, Lucifer yellow, acridine, acridine isothiocyanate, riboflavin and the derivatives, and europium (Eu).
When the compound of the present invention is used in a chemiluminescent immunoassay (CLIA) method, it can be used by labelling it with a luminous material, such as luminol derivatives, e.g., luciferin, isoluminol, luminol, aminoethyl isoluminol, aminoethylethyl isoluminol, aminopropyl isoluminol, aminobutyl isoluminol and aminohexylethyl isoluminol; luciferin; lucigenin; and bis(2,4,6-trifluorophenyl) oxalate.
When a compound of the present invention is used in an ultraviolet absorption method, it can be used by labelling it with a substance that has absorption in a wavelength of ultraviolet rays, such as phenol, naphthol, anthracene and derivatives thereof.
When a compound of the present invention is used in an electron spin resonance (ESR) method, it can be used by labeling it with a spin labelling agent represented by a compound having an oxyl group, such as 4-amino-2,2,6,6-tetramethylpiperidine-1-oxyl, 3-amino-2,2,5,5-tetramethylpyrrolidine-1-oxyl, 2,6-di-t-butyl-α-(3,5-di-t-butyl-4-oxo-2,5-cyclohexadien-1-ylidene)-p-tolyl oxyl.
Further, the compound of the present invention can be labelled with any labelling agents that are commonly used in the field.
In order to bind the above labelling agent to the peptide moiety of the compound of the present invention, known labelling methods, which are commonly performed in EIA, RIA, FIA and the like, are applied, such as those described in “Medical Chemistry Experimental Course, 1st Ed., Vol. 8, Edited by U. Yamamura, published by Nakayama Bookstore, 1971; Illustrated Fluorescent Antibody, 1st Ed., written by A. Kawao, published by Softscience, 1983; and Enzyme-linked immunoassay, 2nd Ed., compiled by E. Ishikawa, T. Kawai and K. Muroi, published by Igakushoin, 1982”.
Of such labelling methods, a preferred method includes that exploits a reaction between avidin (or streptavidin) and biotin. In the case of exploiting the reaction between avidin (or streptavidin) and biotin, a method for binding biotin with the peptide moiety of the compound of the present invention includes a method for reacting a commercially available biotinylating agent (e.g., an agent prepared by binding biotin to which a succineimide group (e.g., NHS-biotin) is introduced or N-hydroxysuccinic acid imide (NHS) with biotin through a spacer) with an amino group in protein (Journal of Biological Chemistry, 1989, Vol. 264, pp. 272-279); a method for reacting a commercially available biotin-HPDP (N-[6-(biotinamide)hexyl]-3′-(2′-pyridylthio)propione amide) or N-iodoacetyl-N-biotinylhexylenediamine with a thiol group in protein (Ann. New York Acad. Sci., 1975, Vol. 254, No. 203); or a method for reacting biotin, to which a hydrazine group is introduced, with an aldehyde group in aldehyded protein (Biotech. Apple. Biochem., 1987, Vol. 9, pp. 488-496).
The invention will be further described and illustrated in the Examples below.
Automated peptide synthesis was carried out in Symphony parallel synthesizer from Protein Technologies Inc.
Protocol Using Symphony Parallel Synthesizer







TABLE I







Program for swelling, first residue attachment and capping,









#
Step
Time





1
DCM (7.5 mL)
30 min × 2


2
DMF (7.5 mL)
30 min × 2


3
Deprotection: 20% Piperdine/DMF (5 mL)
7.30 min × 2


4
Washing: DMF, DCM, DMF (10 mL)
30 sec × 3 each


5
Coupling: 0.25M Fmoc AA (2.5 mL)/0.25M
2 h × 1



HBTU/1M NMM/DMF (2.5 mL)



6
DMF, DCM, DMF (10 mL)
30 sec × 3 each


7
Acylation (Acetic anhydride:Pyridine:DCM; 1:8:8)
7.30 min × 2



(5 mL)



8
DCM, DMF (10 mL)
30 sec × 3 each









Program for Coupling of Amino Acids (Table II)








TABLE II







Program for coupling of amino acids









#
Step
Time





1
Deprotection: 20% Piperidine/DMF (5 mL)
7.30 min × 2


2
Washing: DMF, DCM, DMF (10 mL)
30 sec × 3 each


3
Coupling: 0.25M Fmoc AA (2.5 mL)/0.25M
2 h × 1



HBTU/1M NMM/DMF (2.5 mL)



4
DMF, DCM, DMF (10 mL)
30 sec × 3 each









Program for Coupling of N-Terminal Amino Acid (Table III)








TABLE III







Program for coupling of N-terminal amino acid









#
Step
Time





1
Deprotection: 20% Piperidine/DMF (5 mL)
7.30 min × 2


2
Washing: DMF, DCM, DMF (10 mL)
30 sec × 3 each


3
Coupling: 0.25M Fmoc AA (2.5 mL)/0.25M
2 h × 1



HBTU/1M NMM/DMF (2.5 mL)



4
DMF, DCM, DMF (10 mL)
30 sec × 3 each


5
Deprotection: 20% Piperidine/DMF (5 mL)
7.30 min × 2


6
Washing: DMF, DCM, DMF (10 mL)
30 sec × 3 each









Procedure for Cleavage of Peptidyl Resin and Global Deprotection

The peptidyl Resin was washed with MeOH (6×15 ml) and solvent ether (3×15 ml) and dried under vacuum. The cleavage of the peptides from the solid support is achieved by treating the peptide-resin with cleavage cocktail as specified for each peptide at room temperature for 2.5 h. Cleavage mixture was collected by filtration and the resin was washed with TFA and DCM. The excess TFA and DCM was concentrated to small volume under nitrogen and DCM was added to the residue and evaporated under nitrogen. The process was repeated 3-4 times to remove most of the volatile impurities. The residue was cooled to 0° C. and anhydrous ether was added to precipitate the peptide. The precipitated peptide was centrifuged and the supernatant ether was removed and fresh ether was added to the peptide and re-centrifuged. The residue was dissolved in Millipore water and lyophilized to obtain the crude peptide.
Cleavage cocktail A=82.5% TFA/5% phenol/5% thioanisole/2.5% 1,2 ethanedithiol/5% water
Cleavage cocktail B=80% TFA/5% phenol/5% thioanisole/2.5% 1,2 ethanedithiol/5% DCM/2.5% DMS
Cleavage Cocktail C=90% TFA/5% TIPS/5% water
Purification and Characterization of Peptide
The Reverse phase analytical HPLC was performed using on Zorbax Eclipse XDB-C18 silica column (4.6 mm×250 mm, 5 μm).
The elution conditions used are
Method-1: Buffer A: 0.1% TFA/Water, Buffer B: 0.1% TFA in 9:1 acetonitrile/water.
Equilibration of the column with 2% buffer B and elution by a gradient of 2% to 70% buffer B during 15 min.
Method-2: Buffer A: 0.1% TFA/Water, Buffer B: 0.1% TFA in 9:1 acetonitrile/water.
Equilibration of the column with 2% buffer B and elution by a gradient of 2% to 25% buffer B in 5 min and from 25% to 40% buffer B in total run time of 20 min
Method-3: Buffer A: 0.1% TFA/Water, Buffer B: 0.1% TFA in 9:1 acetonitrile/water.
Equilibration of the column with 2% buffer B and elution by a gradient of 0-15 min=2-70% buffer B, 15-20 min=70-95% buffer B
LCMS was performed on AP1 2000 LC/MS/MS triple quad (Applied biosystems) with Agilent 1100 series HPLC with G1315 B DAD diode array detector, using Mercury MS column
Example 1
Synthesis of




Synthesis of Linear Fragment: FRVTQKFRVTQ[Ahx]LAPKAQIKE-NH2

Desiccated CLEAR-Amide resin ((100-200 mesh) 0.4 mmol/g, 0.5 g) was distributed in 2 polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Ahx-OH (Fmoc-6-aminohexanoic acid), Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. After the completion of linear synthesis fragment in automated peptide synthesiser, the resin was taken out, pooled together and synthesis was carried out manually.
The N-terminal amino acid phenylalanine in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The ε-amino group of sixth lysine (from N terminus) used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF for 5 and 15 minutes. The resin is then filtered and washed with DMF (6×10 mL), DCM (6×10 mL) and DMF (6×10 mL). Deprotection is confirmed by positive ninhydrin test. Fmoc-Phe-OH (0.39 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group of the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 m L). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid in the peptide sequence Fmoc-Ser (OtBu)-OH (0.39 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. On completion of Serine coupling Fmoc group on the Serine was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 m L). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid Fmoc-Glu (OtBu)-OH (0.43 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 mL). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid Fmoc-Ser (OtBu)-OH (0.39 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 mL). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid Fmoc-Thr (OtBu)-OH (0.4 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 mL). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid Fmoc-Asn (Trt)-OH (0.6 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 mL). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Next amino acid Fmoc-Ser (OtBu)-OH (0.39 g; 5 equiv 1 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.16 m L; 5 equiv) and HOBT (0.14 g; 5 equiv) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 mL). The resin was washed with DMF (6×10 m L), DCM (6×10 m L) and DMF (6×10 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (450 mg), 69% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA in 9:1 acetonitrile./water. The peptide was eluted by gradient elution 0-5 min=5-20% buffer B, 5-40 min=20-35% buffer B with a flow rate of 5 mL/min. HPLC: (method 2): RT −14.6 min (94.4%); LCMS Calculated Mass: 3237.83, Observed Mass: 1619.9 [M/2+H]+;1080.2 [M/3+H]+
Example 2
Synthesis of




Synthesis of linear fragment—Fmoc-FRVTQLAPKAQIKE

Desiccated CLEAR-Amide resin ((100-200 mesh) 0.4 mmol/g, 0.5 g) was distributed in 2 polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. After the completion of Fmoc-Phe-OH coupling the resin was taken out form peptide synthesiser and manual coupling was carried out as follows
Fmoc-Phe-OH peptidyl resin from automated synthesiser was pooled in to a glass vessel with frit. The Fmoc group of the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (10 m L). The resin was washed with DMF (6×15 m L), DCM (6×15 m L) and DMF (6×15 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. Fmoc-Lys (Fmoc)-OH (0.48 g; 4 equiv. 0.8 m mol) in dry DMF was added to the deprotected resin and coupling was initiated with DIC (0.15 m L; 5 equiv, 1 m mol) and HOBT (0.08 g; 5 equiv, 0.6 m mol) in DMF. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 3 h. Resin was filtered and washed with DMF (6×15 mL), DCM (6×15 mL) and DMF (6×15 mL). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group on the peptidyl resin is deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (15 mL). The resin was washed with DMF (6×15 mL), DCM (6×15 mL) and DMF (6×15 mL). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. After the deprotection of Fmoc group on Fmoc-Lys(Fmoc)-attached peptidyl resin the peptide chain growth was carried out from both the free amino terminus suing 8 equivalent excess of amino acid (1.6 m mol, 8 equivalent excess of HOBt (0.22 g, 1.6 m mol) and 10 equivalent excess of DIC (0.32 m L, 2 m mol) relative to resin loading. The coupling was carried out at room temperature for 3 h. The amino acids coupled to the peptidyl resin were; Fmoc-Phe-OH (0.62 g; 8 equiv, 1.6 m mol), Fmoc-Ser (OtBu)-OH (0.62 g; 8 equiv, 1.6 m mol), Fmoc-Glu (OtBu)-OH (0.68 g; 8 equiv, 1.6 m mol), Fmoc-Ser (OtBu)-OH (0.62 g; 8 equiv, 1.6 m mol), Fmoc-Thr (OtBu)-OH (0.64 g; 8 equiv, 1.6 m mol), Fmoc-Asn (Trt)-OH (0.95 g; 8 equiv, 1.6 m mol) and N-terminus amino acids as Boc-Ser (OtBu)-OH (0.41 g; 8 equiv, 1.6 m mol) The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (565 mg), 70% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: Acetonitrile. The peptide was eluted by gradient elution 0-5 min=5-10% buffer B, 10-20 min=29% buffer B with a flow rate of 7 mL/min. HPLC: (method 1): RT −12 min (96%); LCMS Calculated Mass: 3261.62, Observed Mass: 1631.6 [M/2+H]+; 1088 [M/3+H]+); 816.2[M/4+H]+;
Example 3
Synthesis of




Desiccated CLEAR-Amide resin ((100-200 mesh) 0.49 mmol/g, 0.5 g) was distributed in 2 polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Ser(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent Fmoc-Amino acids are coupled as mentioned in Table II. The amino acids used in the synthesis were Fmoc-Glu(OtBu)-OH, Fmoc-Tyr(OtBu)-OH, Fmoc-Trp(Boc)-OH, Fmoc-Asp(OtBu)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Asn(Trt)-OH Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH, Fmoc-Ahx-OH. In the case of Biotin coupling the Biotin (0.15 g in 2.5 m L DMF) was dissolved in DMF/DMSO (1:1) and added manually to the reaction vessel in automated peptide synthesiser and coupling reaction was continued as in step 3 and 4 table II (Amino acid is replaced with biotin).
Orthogonal Deprotection of Dde Group
The ε-amino group of sixteenth residue lysine (from N-terminus) used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed on a manual program in parallel synthesizer as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-Ser (OtBu)-OH. The N-terminus acid in the branch peptidyl resin; Fmoc-Lys(Boc)-OH was coupled using the program as mentioned in Table III. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail B to yield (516 mg), 65% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: acetonitrile. The peptide was eluted by gradient elution 0-4 min=10% buffer B, 4-25 min=10-28% buffer B with a flow rate of 7 mL/min. HPLC: (method 1): RT −11.94 min (96%); LCMS Calculated Mass: 3245.69, Observed Mass: 1623 [M/2+H]+; 1082.3 [M/3+H]+; 811.8 [M/4+H]+;
Example 4
Synthesis of




Desiccated CLEAR-Amide resin ((100-200 mesh) 0.4 mmol/g, 0.3 g) was taken in polyethylene vessel equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent Fmoc-Amino acids are coupled as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ile-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH.
Orthogonal Deprotection of Dde Group
The N-terminal amino acid Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The ε-amino group of fifteenth residue lysine (from C-terminus) used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed on a manual program in parallel synthesizer as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-Phe-OH. The amino acids used in the synthesis were Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. The N-terminus amino acid coupling was carried out using hexanoic acid (0.22 g in 2.5 m L DMF) was added manually to the reaction vessel in automated peptide synthesiser and coupling reaction was continued as in step 3 and 4 table 2 (Amino acid is replaced with hexanoic acid). The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (320 mg), 74% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA in 9:1 acetonitrile/water. The peptide was eluted by gradient elution 0-25 min=5-50% buffer B with a flow rate of 7 mL/min. HPLC: (Method 1): RT −12.8 min (94.4%); LCMS Calculated Mass: 3359.62, Observed Mass: 1680.3 [M/2+H]+; 1120.4 [M/3+H]+; 840.5 [M/4+H]+
Example 5
Synthesis of




The synthesis of Example 5 was performed on Clear amide resin (0.46 mmol/g; 500 mg) from peptide international using Symphony parallel synthesizer in two reaction vessels. First amino acid attachment and capping of the peptidyl resin was carried out as per the protocol in Table 1. Subsequent amino acid coupling was carried out as mentioned in Table 2. During the automated synthesis for the coupling of position 8 and 12, the sequence was paused after wash step (step 2) in table II followed by manual addition of Fmoc-(R)-2-(4′-pentenyl) Alanine and subsequent manual program addition of reagent as mentioned in step 3, 4 in Table 2 and the sequence is resumed for subsequent amino acid coupling. The N-terminus amino acids are attached as Boc amino acid using similar procedures used for Fmoc-amino acid.
Orthogonal Deprotection of Dde Group
The ε-amino group of fifteenth residue lysine from C-terminus was used as branching point and was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed as manual program as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-Phe-OH. The amino acids used in the synthesis were Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. The N-terminus amino acids are attached as Boc amino acid using similar procedures used for Fmoc-amino acid.
Stitching of Olefinic Amino Acids
Stitching of the two olefinic amino acids was carried out in customized solid phase peptide vessel of 20 mL capacity with a sintered disc. After the completion of the linear peptide sequence, ring closure metathesis of resin bound N-terminal capped peptides was performed using 20 mol % Grubbs catalyst (1.7 g in 15 ml) in degassed 1,2 dichloroethane (DCE) for 2 hours at room temperature. After 2 h the resin was washed with DCE, DCM, methanol and then dried in Vacuum over night. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (530 mg), 63% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: acetonitrile. The peptide was eluted by gradient elution 0-30 min=10-80% buffer B, with a flow rate of 7 mL/min HPLC: (method 1): RT −12.9 min (95.4%); LCMS Calculated Mass: 3697, Observed Mass: 1232.5 [M/3+H]+; 924.9 [M/4+H]+; 740.2[M/5+H]+
Example 6
Synthesis of







(SEQUENCE ID NO 69)


Ser-Asn-Thr-Ser-Glu-Ser-Phe-Lys-Ser-Asn-Thr-Ser-


 


Glu-Ser-Phe-Phe-Arg-Val-Thr-Gln-Leu-Ala-Pro-Lys-


 


Ala-Gln-Ile-Lys-Glu-NH2






Desiccated CLEAR-Amide resin ((100-200 mesh) 0.46 mmol/g, 0.25 g) was taken in polyethylene vessel equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent Fmoc-Amino acids are coupled as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH, Fmoc-Ser(OtBu)-OH. The N-terminus amino acid Fmoc-Ser(OtBu) was coupled as per the program in table III. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (265 mg), 70% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: acetonitrile. The peptide was eluted by gradient elution 0-30 min=10-80% buffer B, with a flow rate of 7 mL/min. HPLC: (method 1): RT −12.04 min (95.2%); LCMS Calculated Mass: 3261.8, Observed Mass: 1630.7 [M/2+H]+; 1087.5 [M/3+H]+;
Example 7
Synthesis of




Desiccated CLEAR-Amide resin ((100-200 mesh) 0.4 mmol/g, 0.3 g) was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH ] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH.
Orthogonal Deprotection of Dde Group
The N-terminal amino acid Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The ε-amino group of thirteenth residue lysine from N-terminus used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-Phe-OH. The amino acids used in the synthesis were Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. The N-terminus amino acid Fmoc-Ser(OtBu) was coupled as per the program in table III. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (320 mg), 74% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 Prep-HT column (21.2 mm×150 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA in acetonitrile. The peptide was eluted by gradient elution 0-5 min=5-20% buffer B, 5-22 min=20-30% buffer B with a flow rate of 18 mL/min. HPLC: (method 1): RT −12.5 min (97.6%); LCMS Calculated Mass: 3261.62, Observed Mass: 1631.6 [M/2+H]+; 1088 [M/3+H]+; 816.2 [M/4+H]+;
Example 8
Synthesis of




Desiccated CLEAR-Amide resin ((100-200 mesh) 0.4 mmol/g, 0.3 g) was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. 5 equivalent excess of amino acid and coupling reagent relative to resin loading was used for coupling. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH.
Orthogonal Deprotection of Dde Group
The N-terminal amino acid Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The ε-amino group of eighth residue lysine used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent D-amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-D-Phe-OH. The amino acids used in the synthesis were Fmoc-D-Thr(OtBu)-OH, Fmoc-D-Asn(Trt)-OH, Fmoc-D-Ser(OtBu)-OH, Fmoc-D-Glu(OtBu)-OH. The N-terminus amino acid Fmoc-D-Ser(OtBu) was coupled as per the program in table III. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (350 mg), 89% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 Prep-HT column (21.2 mm×150 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA in acetonitrile. The peptide was eluted by gradient elution 0-5 min=5-20% buffer B, 5-18 min=20-27% buffer B with a flow rate of 18 mL/min. HPLC: (method 1): RT −12.06 min (96.6%); LCMS Calculated Mass: 3261.6, Observed Mass: 1631.6 [M/2+H]+; 1088 [M/3+H]+; 816.2 [M/4+H]+;
Example 9
Synthesis of




Desiccated Rink-Amide MBHA resin (100-200 mesh) 0.66 mmol/g, 1 g) was distributed in 4 polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. In the linear sequence 8th amino acid from the N-terminus, Lys, was coupled as Fmoc-Lys(Fmoc)-OH. From the next residue onwards (Fmoc-Phe-OH) the coupling of subsequent amino acids was carried out as in Table II with 10 equivalents excess of amino acid (5 m L each of 0.25 M amino acid, 0.25 M HBTU in 1 M NMM/DMF) coupling reagent relative to resin loading was used for coupling. The N-terminal amino acid Ser(OtBu)-OH at the both N-terminus of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid.
Orthogonal Deprotection of Dde Group
The ε-amino group of seventeenth residue lysine from N-terminus used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed using manual program in synthesizer as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II starting with Fmoc-8-amino 3,6-dioxaoctanoic acid (0.24 g in 2.5 m L DMF) and for maleimido propanoic acid (0.1 g in 2.5 m L DMF). The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (1.6 g), 70% yield. The crude material was purified by preparative HPLC on Phenomenex-C18 silica column (10 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: acetonitrile. The peptide was eluted by gradient elution 0-9 min=10-15% buffer B with a flow rate of 6 mL/min. HPLC: (method 1): RT −11.7 min (95%); LCMS Calculated Mass: 3557.09, Observed Mass: 1779.8 [M/2+H]+1187.1 [M/3+H]+
Example 10
Synthesis of




Desiccated CLEAR amide (100-200 mesh) 0.4 mmol/g, 0.3 g) was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. In the linear sequence 8th amino acid from the N-terminus, Lys, was coupled as Fmoc-Lys (Dde)-OH. The Sixteenth Lysine residue in the linear chain was coupled as Fmoc-Lys (Alloc)-OH. The N-terminal amino acid Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid.
Orthogonal Deprotection of Dde Group
The ε-amino group of eighth residue lysine from N-terminus used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II. The amino acids used were Fmoc-Phe-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. OH. The N-terminal amino acid in the branch, Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid.
Deprotection of Alloc Protecting Group
The ε-amino group sixteenth residue Lysine from N-terminus was coupled as Lys(Alloc) to initiate an additional branching point in the linear sequence. Alloc protecting group from Lys (Alloc) was removed from the peptidyl resin by treating with tetrakistriphenylphosphine palladium (0) (5 Equiv; 2.8 g) and Phenylsilane (10 eqv 0.65 m L) in a solution of chloroform/N-methylpyrrolidine (95/5 v/v) for 6 h under argon. The resin was washed with a solution of 10% NMP in chloroform (6×10 m L), 1% DIEPA in DMF (6×10 m L), DCM (6×10 m L), DMF (6×10 m L). After the completion of Alloc deprotection the resin was loaded back to automated peptide synthesiser. The free amino group was used as second branch point in the sequence. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II. The amino acids used were Fmoc-Lys(Boc)-OH, Fmoc-Ala-OH, Boc-Pro-OH. The N-terminal amino acid in the branch, Proline was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail A to yield (200 mg), 50% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA in acetonitrile. The peptide was eluted by gradient elution 0-2 min=10-20% buffer B, 2-8 min=20-25% buffer B, 8-19 min=25-29% buffer B with a flow rate of 7 mL/min. HPLC: (method 1): RT −12.3 min (94%); LCMS Calculated Mass: 3389.8, Observed Mass: 1695.2 [M/2+H]+;1130.5 [M/3+H]+848.3 [M/4+H]+
Example 11
Synthesis of




Synthesis of Building Block





To a solution of N-Boc amino acid (10.0 g, 38.28 mmol) in THF (100 mL) at −20° C., was added N-methyl morpholine (NMM, 4.25 g, 42.11 mmol) and ethylchloroformate (4.57 g, 42.11 mmol) and the resultant mixture was stirred at same temperature for 20 min. The inorganic salts were filtered off and the filtrate was treated with moist NaBH4 (2.9 g, 76.56 mmol) for 10-15 min. The reaction mixture was then partitioned between water and EtOAc. Organic layer was washed with water, 10% NaHCO3 solution (100 mL×2) and brine, dried over Na2SO4 and evaporated under reduced pressure to yield N-Boc aminol, which was further purified by silica gel column chromatography (eluent: 0-50% EtOAc in Hexane) to yield 8.2 g of product [yield: 85.4%, Mass: Cal. 247.3, Obs: 248.2 (M+1), 270.2 (M+Na)].




To the solution of N-Boc-aminol (3.0 g, 12.13 mmol) in distilled DCM (30.0 mL) was added Dess-Martin periodinane (10.3 g, 24.27 mmol) in a portion wise manner at 0° C. and stirred at rt under N2 atmosphere for 30 min until the reactants were consumed as determined by TLC analysis. The reaction mixture was quenched by adding 1.0M Na2S2O3 solution, and the product was extracted with DCM. The organic extract was washed with (5%, 1:1) Na2S2O3/NaHCO3 solution (20 mL×2), brine (20 mL) and dried over Na2SO4. The solvent was removed under reduced pressure to give the crude product, which was further purified by silica gel column chromatography (eluent: 0-20% EtOAc in Hexane) to yield 2.4 g pure product 1 (yield-82%, Mass-Cal. 245.32, Obs-247.9 (M+1), 265.1 (M+Na)).




To a solution of Fmoc-Asn(trt)-OH (4.0 g, 6.7 mmol) in 30.0 mL of DMF was added Cs2CO3 (2.62 g, 8.0 mmol). The mixture was then cooled to 0° C. and benzyl bromide (1.37 g, 8.0 mmol) was added and the resultant solution was stirred for 30 min at 0° C. and then at rt for 12 h. The reaction mixture was concentrated under reduced pressure and diluted with EtOAc (50 mL), the organic layer was washed with NaHCO3 (2×50 m L) and brine (1×50 m L), dried over Na2SO4, filtered and concentrated in vacuuo and purified by silica gel column chromatogrophy (eluent: 0-30% EtOAc in Hexane) to furnish Fmoc-Asn(trt)-OBn as white solid [yield: 4.5 g, 98.0%; Mass: Cal. 686.28, Obs-687.3 (M+1), 709.1 (M+Na]
To a solution of Fmoc-Asn(Trt)-OBn (3.5 g, 5.1 mmol) in DCM (14.0 mL), diethylamine (14.0 m L) was added and stirred for 1 h at rt. The resulting solution was concentrated in vacuuo and the thick-residue was purified by neutral alumina column chromatography (eluent: 0-50% EtOAc in Hexane then 0-5% MeOH in CHCl3) to yield H-Asn(trt)-Obn 2 (yield: 1.75 g, 73.0%; Mass: Cal. 464.21, Obs-465.3 (M+1), 487.2 (M+Na]).




H-Asn(Trt)-OBn (4.5 g, 9.7 mmol), DIPEA (2.5 g, 19.4 mmol) and Boc-Ser(OtBu)-CHO (2.4 g, 9.7 mmol) were mixed in DCM (45 mL) at 0° C. and then allowed to stir at room temperature for 1 h. Again the reaction mixture was cooled to 0° C. and treated with sodium triacetoxyborohydride (4.1 g, 19.4 mmol) and then mixture was allowed to stir at room temperature under N2 atmosphere for 6 h until the reactants were consumed as determined by TLC analysis. The reaction mixture was quenched by adding water, and the product was extracted with DCM. The organic extract was washed with 5% NaHCO3 solution (50 mL×2), 5% citric acid solution (50 mL×2), brine (50 mL) and dried over Na2SO4. The solvent was evaporated to give the crude product which was further purified by silica gel column chromatography (eluent: 5-40% EtOAc in Hexane) to furnish the desired product 3 (yield: 4.2 g, 62.0%; Mass: Cal. 693.27, Obs-694.4 (M+1), 716.0 (M+Na)).




To a solution of compound 3 (4.0 g) in methanol (70.0 m L) under inert atmosphere, was added 10% Pd—C (1.0 g) and the mixture was stirred for 4 h under H2 atmosphere. The completion of the reaction was confirmed by TLC analysis. The catalyst was then removed by filtration through a celite pad, which was then washed with 50 mL of methanol. The combined organic filtrate, on evaporation under reduced pressure resulted in the isolation of the product 4, (Yield: 3.3 g, 96.0%; Mass: Cal. 603.25, Obs-604.4 (M+1), 626.4 (M+Na).
Peptide Synthesis:
Desiccated Rink-Amide MBHA resin (100-200 mesh) 0.66 mmol/g, 0.1 g) was taken in polyethylene vessel equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. 5 equivalent excess of amino acid and coupling reagent relative to resin loading was used for coupling. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. In the linear sequence 8th amino acid from the N-terminus, Lys, was coupled as Fmoc-Lys(Fmoc)-OH. From the next residue onwards (Fmoc-Phe-OH) the coupling of subsequent amino acids was carried out as in Table II with 10 equivalents excess of amino acid (5 m L each of 0.25 M amino acid, 0.25 M HBTU in 1 M NMM/DMF) coupling reagent relative to resin loading was used for coupling. The amino acids used in the synthesis were Fmoc-Thr(OtBu)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)—OH The N-terminal amino acid Boc-SerΨ[CH2NH]Asn(Trt)-OH (0.4 g in 5 m L) at the both N-terminus was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (150 mg), 70% yield. The crude sample was preparative HPLC purified and Lyophilised. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: acetonitrile. The peptide was eluted by gradient elution 0-25 min=2-30% buffer B, with a flow rate of 7 mL/min. HPLC: (method 1): RT −12 min (93%); LCMS Calculated Mass: 3232.8, Observed Mass: 1617.4[M/2+H]+809.6 [M/4+H]+
Example 12
Synthesis of




Desiccated Rink Amide MBHA-Amide resin (100-200 mesh, 0.66 mmol/g, 15 g) was distributed equally in to 5 customized solid phase peptide vessel of capacity with a sintered disc glass reactor vessel with a frit. Resin in each of the reactor was swelled in DCM (30 m L) for 1 h and DMF (30 m L) for 1 h. The Fmoc group of the Rink Amide MBHA-Amide was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (30 m L). The resin was washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. The C-terminal amino acid, Fmoc-Glu(OtBu)-OH (21 g; 5 equiv. 49.5 mmol) dissolved in dry DMF was distributed in equal volume to all the five glass reactor. The coupling was initiated by addition of DIC (7.6 m L; 5 equiv, 49.5 m mol) and HOBT (6.7 g; 49.5 m mol) dissolved DMF distributed equally to the 5 glass reactor vessel. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 2 h. Resin was filtered and washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative After the first amino acid attachment, the unreacted amino group, if any, in the resin is capped used acetic anhydride/pyridine/DCM (1:8:8) for 20 minutes to avoid any deletion of the sequence. After capping, resin in individual reactor was washed with DCM (6×30 m L), DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). The Fmoc group on the C-terminal amino acid attached peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (30 m L). The resin was washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. The subsequent amino acids Fmoc-Lys(Boc)-OH, Fmoc-Ile-OH, Fmoc-Gln(Trt)-OH and Fmoc-Ala-OH was coupled using 5 equivalent excess each of amino acid, DIC and HOBt relative to resin loading. The Sixth residue from the C-terminus Lys was coupled as Fmoc-Lys(Dde)-OH. Fmoc-Lys(Dde)-OH (16 g; 3 equiv. 29.7 mmol) dissolved in dry DMF was distributed in equal volume to all the five glass reactor. The coupling was initiated by addition of DIC (4.5 m L; 3 equiv, 29.7 m mol) and HOBT (4 g; 3 equiv, 29.7 m mol) dissolved in DMF distributed equally to the 5 glass reactor vessel. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 3 h. Resin was filtered and washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group of the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (30 m L). The resin was washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of Fmoc-deprotection was positive. The subsequent amino acids Fmoc-Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln (Trt)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH was coupled to the peptidyl resin using 5 equivalent excess of amino acid, HOBt and DIC method. The reaction was carried out for 3 h at room temperature. The fifteenth residue from the C-terminus, Lys was coupled as Fmoc-Lys(Fmoc)-OH. Fmoc-Lys(Fmoc)-OH (17.5 g; 3 equiv. 29.7 mmol) dissolved in dry DMF was distributed in equal volume to all the five glass reactor. The coupling was initiated by addition of DIC (4.5 m L; 3 equiv, 29.7 m mol) and HOBT (4 g; 3 equiv, 29.7 m mol) dissolved DMF distributed equally to the 5 glass reactor vessel. The concentration of each reactant in the reaction mixture was approximately 0.4 M. The mixture was rotated on a rotor at room temperature for 3 h. Resin was filtered and washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). Kaiser test on peptide resin aliquot upon completion of coupling was negative. The Fmoc group of the peptidyl resin was deprotected by treating it twice with 20% (v/v) piperidine/DMF solution for 5 and 15 min (30 m L). The resin was washed with DMF (6×30 m L), DCM (6×30 m L) and DMF (6×30 m L). After the deprotection of Fmoc-Lys(Fmoc)-attached peptidyl resin the peptide chain growth was carried out from both the free amino terminus suing 8 equivalent excess of amino acid (79 m mol), 8 equivalent excess of HOBt (79 m mol) and 10 equivalent excess of DIC (99 m mol) relative to resin loading. The reaction was carried out for 2 h at room temperature. The amino acids used in the synthesis were Fmoc-Phe-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Asn (Trt)-OH, Fmoc-Ser(OtBu)-OH and Fmoc-Glu(OtBu)-OH. The N-terminal amino acid Serine was coupled as Boc-Ser(OtBu)-OH using DIC/HOBT method (8 equivalent excess relative to resin loading). Orthogonal deprotection of Dde group: The ε-amino group of seventeenth residue lysine from N-terminus used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of ε-amino group of the lysine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF as explained in example 1.
Coupling of Palmitic Acid
To the free ε-amino group of lysine, palmitic acid (12 g, 5 equiv, 49.5 m mol) dissolved in DMF was added in equal proportion to five reactor vessel followed by the addition of DIC (7.6 m L; 5 equiv, 49.5 m mol) and HOBT (6.7 g; 49.5 m mol) in DMF in similar manner.
The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (22 g), 65% yield. The crude sample was preparative HPLC purified and Lyophilised. The crude material was purified by preparative HPLC on Waters X-Bridge Prep C18-OBD column (19 mm×150 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: 0.1% TFA/acetonitrile. The peptide was eluted by gradient elution 0-3 min=15-25% buffer B, 3-5 min=25-38% buffer B, 5-15 min=38-50% buffer B, 15-19 min=50% buffer B with a flow rate of 15 m L/min. HPLC: (method 3): RT −17.5 min (95.4%); LCMS Calculated Mass: 3499.62, Observed Mass: 1750.3 [M/2+H]+;1167.2 [M/3+H]+
Example 13
Synthesis of




Desiccated Rink-Amide MBHA resin ((100-200 mesh) 0.6 mmol/g, 0.28 g) was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. In the linear fragment the second amino acid from the C-terminus was coupled as Fmoc-Lys(Alloc)-OH and sixth amino acid from C-terminus was coupled as Fmoc-Glu(OAll)-OH. In the linear sequence 8th amino acid from the N-terminus, Lys, was coupled as Fmoc-Lys(Fmoc)-OH. From the next residue onwards (Fmoc-Phe-OH) the coupling of subsequent amino acids was carried out as in Table II using 5 m L each of 0.25 M amino acid, 0.25 M HBTU in 1 M NMM/DMF as coupling reagent. The amino acids used in the synthesis were Fmoc-Thr(OtBu)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. The N-terminus amino acids at both the ends are coupled as Boc-Ser(OtBu)-OH.
Deprotection of Alloc Protecting Group
After completion of the entire peptide sequence, the orthogonal Alloc and Allyl protecting group present in Lysine and Glutamic acid was removed from the peptidyl resin by treating with tetrakistriphenylphosphine palladium (0) (10 Equiv; 2.1 g) and Phenylsilane (20 eqv 0.32 m L) in a solution of chloroform/N-methylpyrrolidine (95/5 v/v) for 6 h under argon. The resin was washed with a solution of 10% NMP in chloroform (6×10 m L), 1% DIEPA in DMF (6×10 m L), DCM (6×10 m L), DMF (6×10 m L). The ε-free amino group of lysine and γ-free carboxyl group of Glutamic acid was kept for lactam bridging using HOBt (0.12 g; 0.92 m mol) and DIC (0.18 m L; 1.1 m mol) dissolved in NMP. After 17 h the resin was filtered and washed with DMF (6×10 m L), DCM (6×10 m L), DMF (6×10 m L). The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (407 mg), 68% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column (9.4 mm×250 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: Acetonitrile. The peptide was eluted by gradient elution 0-4 min=10% buffer B, 4-21.5 min=10-30.9% buffer B, 21.5-30.9 min=30.9-35% buffer B with a flow rate of 7 mL/min HPLC: (method 1): RT −12.5 min LCMS Calculated Mass: 3244.12, Observed Mass: 1622.9 [M/2+H]+; 1082.1 [M/3+H]+
Example 14
Synthesis of




Desiccated Rink amide MBHA (100-200 mesh) 0.66 mmol/g, 0.3 g) was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Swelling, C-terminal amino acid [Fmoc-Glu(OtBu)-OH ] attachment and capping of the peptidyl resin was carried out as per the protocol in Table I. Subsequent amino acid coupling was carried out as mentioned in Table II. In the linear sequence 8th amino acid from the N-terminus, Orn, was coupled as Fmoc-Orn-(Dde)-OH. The N-terminal amino acid Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid.
Orthogonal Deprotection of Dde Group
The δ-amino group of eighth residue ornithine used as branching point was protected with Dde group. After completion of the linear peptide chain Dde protection of δ-amino group of the ornithine was orthogonally deprotected by treating the resin with 2.5% (v/v) Hydrazine hydrate solution in DMF (2×7.30 min) was carried out in automated synthesizer via manual addition of hydrazine hydrate solution. The resin was further washed using manual programme in synthesizer as in step 4, table II. The coupling of amino acid in the branch was carried out by the incorporation of subsequent amino acids using program for amino acid coupling as mentioned in table II. The amino acids used were Fmoc-Phe-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Ser(OtBu)-OH, Fmoc-Glu(OtBu)-OH. OH. The N-terminal amino acid in the branch, Ser(OtBu)-OH in the linear chain of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid.
The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (295 mg), 70% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column 21.2 mm×150 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: Acetonitrile. The peptide was eluted by gradient elution 0-5 min=5-20% buffer B, 5-15 min=20-25% buffer B with a flow rate of 18 mL/min. HPLC: (method 1): RT −11.1 min LCMS Calculated Mass: 2135.77, Observed Mass: 1067.9 [M/2]+; 711.9 [M/3]+
Example 15
Synthesis of




Desiccated H-Glu (OtBu)-2-chlorotrityl chloride resin (100-200 mesh) 0.5 mmol/g, 0.35 g was taken in polyethylene vessels equipped with a polypropylene filter. The linear peptide synthesis on solid phase were carried out automatically, using Symphony parallel synthesizer (PTI) using the synthesis programs mentioned in the table below. Subsequent amino acid coupling was carried out as mentioned in Table II. The amino acids used in the synthesis were Fmoc Phe-OH, Fmoc-Arg(Pbf)-OH, Fmoc-Val-OH, Fmoc-Thr(OtBu)-OH, Fmoc-Gln(Trt)-OH, Fmoc-Asn(Trt)-OH, Fmoc-Lys(Boc)-OH, Fmoc-Leu-OH, Fmoc-Ala-OH, Fmoc-Pro-OH, Fmoc-Ile-OH. In the linear sequence 8th amino acid from the N-terminus, Lys, was coupled as Fmoc-Lys(Fmoc)-OH. From the next residue onwards (Fmoc-Phe-OH) the coupling of subsequent amino acids was carried out as in Table II using 5 m L each of 0.25 M amino acid, 0.25 M HBTU in 1 M NMM/DMF as coupling reagent. The N-terminal amino acid Ser(OtBu)-OH at the both N-terminus of the peptide was coupled as N-Boc amino acid in the same procedure as employed for N-Fmoc amino acid. The peptidyl resin was cleaved as mentioned in procedure for cleavage using cleavage cocktail C to yield (400 mg), 66% yield. The crude material was purified by preparative HPLC on Zorbax Eclipse XDB-C18 column 21.2 mm×150 mm, 5 μm) with buffer A: 0.1% TFA/Water, buffer B: Acetonitrile. The peptide was eluted by gradient elution 0-5 min=5-20% buffer B, 5-18 min=20-27% buffer B with a flow rate of 18 mL/min. HPLC: (method 1): RT −12.1 min LCMS Calculated Mass: 3262.62, Observed Mass: 1088.6 [M/3+H]+; 813.4 [M/4+H]+
The other compounds of the invention were prepared by following similar procedure as described above with suitable modification known to the one ordinary skilled in the art. The identity of peptide was confirmed by LCMS (Table IV).









TABLE IV







Comp

LCMS










No
Sequence
Calculated
observed














1
SNTSESF-NH2 (SEQ ID NO: 42)
769.7
770.0
[M]+


2
CH3—CO-SNTSESF-NH2 (SEQ ID NO: 43)
811.81
812.3 
[M]+


3
SNQTDKLAAFPEDSQPGQD-NH2 (SEQ ID NO: 44)
2047.14
1024.3 
[M/2 + H]+


4
EDRSQPGQDCR-NH2
1288.35
1289.8
[M + H]+;



(SEQ ID NO: 45)

645.6
[M/2 + H]+


5
CGAISLAPKAQIKES-NH2
1513.81
1515.2
[M + H]+;



(SEQ ID NO: 46)

758.2
[M/2 + H]+


6
FRVTQK(SNTSESF)FRVTQAhxLAPKAQIKE-NH2
3237.83
1619.9
[M/2 + H]+; 



(SEQ ID NO: 47)

1080.2
[M/3 + H]+


7
FRVTQK(SNTSESF)FRVTQLAPKAQIKE-NH2
3140.62
1571.2 
[M/2 + H]+;



(SEQ ID NO: 48)

1047.8 
[M/3 + H]+


8
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
3261.62
1631.6 
[M/2 + H]+;



(SEQ ID NO: 49)

1088 
[M/3 + H]+;);





816.2
[M/4 + H]+;


9
SNQTDK (SNQTDK) FRVTQLAPKAQIKE-NH2
2975.34
1487.7 
[M/2 + H]+;



(SEQ ID NO: 50)

992.2 
[M/3 + H]+;





744.5 
[M/4 + H]+;


10
SNQTDK (SNQTDK) VLNWYRMLAPKAQIKE-NH2
3306.78
1653.8 
[M/2 + H]+;



(SEQ ID NO: 51)

1102.7 
[M/3 + H]+;





827.4
[M/42 + H]+


11
SNTSESFK(SNQTDK)FRVTQLAPKAQIKE-NH2
3182.57
1591.8 
[M/2 + H]+;



(SEQ ID NO: 52)

1061.7 
[M/3 + H]+;





796.6
[M/4 + H]+;


12
SNTSESFK(SNQTDK)FRVTQK(LAP)AQIKE-NH2
3182.57
1591.7 
[M/2 + H]+;



(SEQ ID NO: 53)

1061.2
[M/3 + H]+;





796.3 
[M/4 + H]+;


13
sntsesfk(sntsesf)frvtqlapkaqike-NH2
3261.62
1630.8 
[M/2 + H]+;



(SEQ ID NO: 54)

1087.5 
[M/3 + H]+;





815.8 
[M/4 + H]+;


14
EKIQAKPAYWNLVK(KDTQNS)DTQNS
2906
1454.2 
[M/2 + H]+



(SEQ ID NO: 55)

969.5 
[M/3 + H]+;





727.6 
[M/4 + H]+


15
Biotin-Ahx-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
3601.22
1200.9 
[M/3 + H]+;



(SEQ ID NO: 56)

901.0 
[M/4 + H]+


16
C6 lipid-
3359.62
1680.4 
[M/2 + H]+;



SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2

1120.5 
[M/3 + H]+;;



(SEQ ID NO: 57)

840.7
[M/4 + H]+;


17
Ac-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
3303.66
1653.2 
[M/2 + H]+;



(SEQ ID NO: 58)

1101.9 
[M/3 + H]+;





826.9 
[M/4 + H]+;


18
SNTSESFK(NH-(PEG)11-CO-SNTSESF)FRVTQLAPKAQIKE-NH2
3861.42
773.6 
[M/5 + H]+;



(SEQ ID NO: 59)





19
SNTSESFK(SNTSESF)(PEG)LAPKAQIKE-NH2
3229.89
1615.17
[M/2 + H]+;



(SEQ ID NO: 60)

1077.1 
[M/3 + H]+;





808.3 
[M/4 + H]+


20
SNTSESFK(CH3(CH2)4CO-SNTSESF)FRVTQLAPKAQIKE-NH2
3359.62
1680.3 
[M/2 + H]+;



C6 lipid in branch (SEQ ID NO: 61)

1120.4 
[M/3 + H]+;





840.5 
[M/4 + H]+


21
CH3(CH2)4CO-SNTSESFK(CH3(CH2)4CO-
3457.62
1729.1 
[M/2 + H]+;



SNTSESF)FRVTQLAPKAQIKE-NH2

1152 
[M/3 + H]+;



Lipidation on both Branch & N-termini (SEQ ID NO: 62)





 


22




2070.6
1035.5 
[M/2 + H]+;


 


23




3697
1232.5 924.9  740.2
[M/3 + H]+; ; [M/4 + H]+; [M/5 + H]+


 


24




2198.8
1099.4 
[M/2 + H]+;


 


25
SNTSESFK(SNTSESF)FRVTQLAQIKE-NH2
2965.25
1483 
[M/2 + H]+;



(SEQ ID NO: 66)

988.9 
[M/2 + H]+


26
SNTSESFFRVTQLAPKAQIKE-NH2
2380.71
1191.0 
[M/2 + H]+;



(SEQ ID NO: 67)

794.3 
[M/3 + H]+;


27
SNTSESFKFRVTQLAPKAQIKE-NH2
2508.88
1254.9
[M/2 + H]+;



(SEQ ID NO: 68)

837.0 
[M/3 + H]+;


28
SNTSESFKSNTSESFFRVTQLAPKAQIKE-NH2
3261.8
1630.7 
[M/2 + H]+;



(SEQ ID NO: 69)

1087.5 
[M/3 + H]+; ;


29
SNTSESFK(SNTSESF)-NH2
1650.69
1650.5 
[M]+



(SEQ ID NO: 70)

825.9
[M/2 + H]+


30
SNTSESFK(SNTSESF)LAPKAQIKE-NH2
2629.89
1315.1 
[M/2 + H]+;



(SEQ ID NO: 71)

877.0 
[M/3 + H]+;


31
SNTSESFK(SNTSESF)FRVTQKAQIKE-NH2
2980.27
1489.9 
[M/2 + H]+;



(SEQ ID NO: 72)

993.9 
[M/3 + H]+;





745.7 
[M/4 + H]+;


32
SNTSESFK(SNTSESF)KAQIKE-NH2
2348.53
1174.5 
[M/2 + H]+;



(SEQ ID NO: 73)

783.2 
[M/3 + H]+


33
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)E-NH2
3499.62
1166.8
[M/3 + H]+



(SEQ ID NO: 74)





34
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE-NH2
3499.62
1750.3
[M/2 + H]+;



(SEQ ID NO: 75)

1167.2
[M/3 + H]+


35
SNTSESFK(SNTSESF)FRVTQK(LAP)KAQIKE-NH2
3389.8
1695
[M/2 + H]+;



(SEQ ID NO: 76)

1130.2
[M/3 + H]+;





848.3
[M/4 + H]+


36
SNTSESFK(SNTSESF)FRVTQLAK(PKA)QIKE-NH2
3389.8
1695.2
[M/2 + H]+;



(SEQ ID NO: 77)

1130.5
[M/3 + H]+;





848.3
[M/4 + H]+


37
SNTSESFK(LAP)FRVTQLAPKAQIKE-NH2
2790.24
1395.2 
[M/2 + H]+;



(SEQ ID NO: 78)

930.6 
[M/3 + H]+;





698.4 
[M/4 + H]+


38
LAPK(LAP)FRVTQLAPKAQIKE-NH2
2318.86
1159.7 
[M/2 + H]+;



(SEQ ID NO: 79)

773.6 
[M/3 + H]+;





580.6 
[M/4 + H]+


39
LAPKAQIKE-NH2
996.23
996.7 
[M]+



(SEQ ID NO: 80)





40
SNTSESFK(SNTSESF)FK(CH3(CH2)14CO))VTQLAPKAQIKE-NH2
3471.61
1736.5 
[M/2 + H]+;



Arg in D strand replaced by Lys

1158.2 
[M/3 + H]+;



(SEQ ID NO: 81)

869.1 
[M/4 + H]+


41
SNTSESFK(SNTSESF)FRVTQLAP-NH2
2563.78
1282.1 
[M/2 + H]+;



(SEQ ID NO: 82)

855.1 
[M/3 + H]+;


42
SNTSESFFRVTQK(SNTSESF)LAPKAQIKE-NH2
3261.62
1631.6 
[M/2 + H]+;



(SEQ ID NO: 83)

1088 
[M/3 + H]+;





816.2 
[M/4 + H]+;


43
FRVTQLAPKAQIKE-NH2
1627.97
1627.7 
[M]+; 



(SEQ ID NO: 84)

814.3
[M/2 + H]+;





543.3
[M/3 + H]+;


44
SNTSESFK(SNTSESF)FK(CH3(CH2)6CO)VTQLAPKAQIKE-NH2
3359.61
1680.2 
[M/2 + H]+;



Arg in D strand replaced by Lys (SEQ ID NO: 85)

1121.1
[M/3 + H]+


45
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)6CO)AQIKE-NH2
3387.62
1129.9 
[M/3 + H]+;



(SEQ ID NO: 86)

847.3 
[M/4 + H]+;


46
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)E-NH2
3387.62
1693.8 
[M/2 + H]+;



(SEQ ID NO: 87)

1129.7 
[M/3 + H]+;





847.5 
[M/4 + H]+;


47
SNTSESFK(sntsesf)FRVTQLAPKAQIKE-NH2
3261.62
1631.6
[M/2 + H]+;



(SEQ ID NO: 88)

1088 
[M/3 + H]+;





816.2 
[M/4 + H]+;


48
EKIQAKPALQTVRFK(FSESTNS)FSESTNS-NH2
3261.62
1631.6 
[M/2 + H]+;



(SEQ ID NO: 89)

1088 
[M/3 + H]+;





816.2 
[M/2 + H]+;


49
ekiqakpalqtvrfk(fsestns)fsestns-NH2
3261.62
1630.6 
[M/2 + H]+;



(SEQ ID NO: 90)

1087.5 
[M/3 + H]+;





815.7 
[M/4 + H]+;


57
SNTSESFK(SNTSESF)FRVTQLAPK(CH3CO)AQIKE-NH2
3304.61
1653.3 
[M/2 + H]+;



(SEQ ID NO: 98)

1102.5 
[M/3 + H]+;


59
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)4—CO)AQIKE-NH2
3359.62
1681.3 
[M/2 + H]+;



(SEQ ID NO: 100)

1121.2 
[M/3 + H]+;


60
Biotin-Ahx-sntsesfk(sntsesf)frvtqlapkaqike-NH2
3601.22
1201.1
[M/3 + H]+



(SEQ ID NO: 101)

901.3
[M/4 + H]+


61
Biotin-Ahx-EKIQAKPAYWNLVK(KDTQNS)DTQNS-NH2
3245.69
1623 
[M/2 + H]+;



(SEQ ID NO: 102)

1082.3 
[M/3 + H]+;





811.8 
[M/4 + H]+;


62
SNTSESFK(SNTSESF)FRVTQLAPE*AQIK*E-NH2
3244.12
1622.9
[M/2 + H]+;



(SEQ ID NO: 103)

1082
[M/2 + H]+;


63
SNTSESFK(SNTSESF)FK*VTQE*APKAQIKE-NH2
3232.57
1615.4 
[M/2 + H]+;



(SEQ ID NO: 104)

1078 
[M/3 + H]+;


64
SNTSESFK(SNTSESF)FRVTE*LAPK*AQIKE-NH2
3244.12
1622.4 
[M/2 + H]+;



(SEQ ID NO: 105)

1082.4
[M/3 + H]+;


65
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK
3471
1736 
[M/2 + H]+;



(CH3(CH2)6CO)E-NH2 (SEQ ID NO: 106)

1158
[M/3 + H]+


66
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK
3583
1792.6
[M/2 + H]+;



(CH3(CH2)14CO)E-NH2 (SEQ ID NO: 107)

1195.4
[M/3 + H]+


67
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK
3529.2
1764.7 
[M/2]+;



(CH3(CH2)10CO)E-NH2 (SEQ ID NO: 108)

1176.8
[M/3]+


68
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK
3442.1
1722.1
[M/2 + H]+;



(CH3(CH2)4CO)E-NH2 (SEQ ID NO: 109)

1148.1
[M/3 + H]+


69
SNWSEDLK(SNWSEDL)FQIIQLHPKAKIEE-NH2
3484.09
1742.9
[M/2 + H]+;



(SEQ ID NO: 110)

1162.3
[M/3+ H]+


70
EDK(ED)FRVTQLAPKAQIKE-NH2
2245.54
1122.8
[M/2 + H]+;



(SEQ ID NO: 111)

748.9
[M/3 + H]+


71
SNTSESFK(ED)FRVTQLAPKAQIKE-NH2
2754.07
918.4
[M/3 + H]+;



(SEQ ID NO: 112)

689.3
[M/4 + H]+


72
LAPKAK(ED)FRVTQLAPKAQIKE-NH2
2481.0
828 
[M/3 + H]+;



(SEQ ID NO: 113)

621.1
[M/4 + H]+


73
SNQTDKK(ED)FRVTQLAPKAQIKE-NH2
2674.03
892.0
[M/3 + H]+;



(SEQ ID NO: 114)

669.2
[M/4 + H]+


74
SNQTDK(SNQTDK)GIYLCGAISLAPKAQIKE-NH2
3227.66
1077.5 
[M/3 + H]+;



(SEQ ID NO: 115)





75
SNQTDKK(VLNWYRM)GIYLCGAISLAPKAQIKE-NH2
3639.22
1214.5 
[M/3 + H]+;



(SEQ ID NO: 116)

727.8 
[M/5 + H]+


76
EDK(VLNWYRM)GIYLCGAISLAPKAQIKE-NH2
3208.44
1605.8 
[M/2 + H]+;



(SEQ ID NO: 117)

1070.8
[M/4 + H]+


77
SNTSESFK(SNTSESF)GIYLCGAISLAPKAQIKE-NH2
3506.74
874.0 
[M/4 + H]+



(SEQ ID NO: 118)





79
VLNWYRMK(SNQTDK)GIYLCGAISLAPKAQIKE-NH2
3638.32
1214.1 
[M/3 + H]+;



(SEQ ID NO: 120)

727.7
[M/5 + H]+


80
GIYLCGAISLAPKAQIKE-NH2
1873.29
937.6
[M/2 + H]+



(SEQ ID NO: 121)





81
SNQTDKK (SNQTDK) FRVTQLAPKAQIKE-NH2
3103.51
1552.4 
[M/2 + H]+;



(SEQ ID NO: 122)

1035.7 
[M/3 + H]+;





777.0 
[M/4 + H]+;


82
SNWSEDLK(SNWSEDL)FQIIQLHPK(CH3(CH2)14CO)AKIEE-NH2
3727.8
1241.9
[M/3]+



(SEQ ID NO: 123)





83
SNTSESFK(SNTSESF)FRVTQLAPK(MPA-
3557.09
1779.8
[M/2 + H]+



NH—CH2—CH2—O—CH2—CH2—O—CO)AQIKE-NH2

1187.1
[M/3 + H]+



(SEQ ID NO: 124)





84
SNTSESFK(sNTSESF)FRVTQLAPKAQIKE-NH2
3261.62
1631 
[M/2 + H]+;



(D-ser in the branch)

1088.2 
[M/3 + H]+;



(SEQ ID NO: 125)

816.2 
[M/4 + H]+;


88
SΨ[CH2NH]NTSESFK(SΨ[CH2NH]NTSESF)FRVTQLAPKAQIKE-NH2
3232.8
1617.4
[M/2 + H]+



(SEQ ID NO: 129)

809.6
[M/4 + H]+


89
SnTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
3261.62
1631.6 
[M/2 + H]+;



D-Asn at N-terminus

1087.8 
[M/3 + H]+;



(SEQ ID NO: 130)

816.2 
[M/4 + H]+;


90
SNTSESFK(SnTSESF)FRVTQLAPKAQIKE-NH2
3261.62
1631.5 
[M/2 + H]+;



D-Asn in the branch

1088.1 
[M/3 + H]+;



(SEQ ID NO: 131)

816.1 
[M/4 + H]+;


91
SNWSEDLK(SNWSEDL)FQIIQLHPK(MPA-
3779.2
1261.1
[M/2 + H]+



NH—CH2—CH2—O—CH2—CH2—O—CO)AKIEE-NH2

946.0
[M/4 + H]+



(SEQ ID NO: 132)





92
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE
3262.62
1088.6 
[M/3 + H]+;



(SEQ ID NO: 133)

813.4
[M/4]+;


98
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE
3500.62
1167.4 
[M/3 + H]+



(SEQ ID NO: 139)





99
SNTSESF-Orn-(SNTSESF) KAQIKE-NH2
2135.77
1067.9 
[M/2]+;



(SEQ ID NO: 140)

711.9
[M/3]+


100
SNTSESF-Dap-(SNTSESF) KAQIKE-NH2
2107.8
1053.9 
[M/2]+;



(SEQ ID NO: 141)

703.0
[M/3]+


101
SNTSESF-Dab-(SNTSESF) KAQIKE-NH2
2121.22
1060.5 
[M/2]+;



(SEQ ID NO: 142)





106
LAPKA-NH2 (SEQ ID NO: 147)
497.64
498.3 
[M + H]+;


107
LAPKA(SNQTDK)FRVTQLAPKAQIKE-NH2
2910.44
971.2
[M/3 + H]+



(SEQ ID NO: 148)

728.5
[M/4 + H]+









Example 16
Binding Inhibition Analysis by Flow Cytometry
Reagents:
Expression of PD1 Fusion with Murine Fc Region in Mammalian Cells:
Extracellular domain of human PD1 (1-167 amino acid residues) was cloned in pFUSE-Fc (Invivogen, CA). This construct was transfected into HEK293 cells (CRL 1573, ATCC) using Lipofectamine 2000 (Invitrogen) and expressed transiently. The secreted recombinant protein containing extracellular PD1 protein fused with Fc region of murine IgG was purified from the culture media in which transfected cells were grown.
Cell Lines as Source of Ligand for PD1:
MDA-MB-231 cells were found to express PD-L1 by RT-PCR and therefore used as a source of PD-L1 in the assays. Recombinant PDL2 expressing HEK293 cells were used as a source of PDL2 in the cellular context.
Flow Cytometry Based Determination of Binding of PD1 with its Ligands:
This assay was done to determine the effect of compounds on binding of PD1 with its ligands PD-L1 and PD-L2. Briefly, HEK 293 cells (ATCC:CRL-1573) overexpressing recombinant hPDL-2 in a stable manner and pcDNA Myc HisA transfected HEK 293 (negative control) cell lines were grown upto 60-70% confluency using complete DMEM media (Sigma D5648-1L). Cells were dissociated with cell dissociation buffer (Invitrogen-13151-014) and counted following which 2×105 cells were re-suspended in 50 μl of complete DMEM media in FACS tube.
Before dissociating cells, soluble PD1 tagged with Fc (derived from concentrated supernatant of transiently transfected cells) was incubated with test compound #8; in a total volume of 10 μl for one hour. PD1-Neutralizing antibody (mouse monoclonal IgG2B clone 192106, Cat. No MAB1086; R&D Labs, USA) was also pre-incubated with soluble PD1 to be used as a positive control for inhibition of binding of PD1 to its ligand. The mixture of PD1/pFuse pre-incubated with Compound #8 at varying doses; Compound was added to the cells and allowed to bind.
To detect the association of PD1 to ligand expressing cells, anti-mouse secondary antibody conjugated to Alexafluor 488 (Invitrogen, Cat. No. 11001) at 1:1000 dilution was added to the cells and incubated for half hour at 4° C. Five hundred microliters of FACS sheath fluid (BD, Catalog No. 336524) was added to these tubes after half hour and analysis was done in BD FACS Calibur machine. Compound #8 was able to inhibit binding of PD1 to PD-L2 expressed in HEK 293 cells in a potent manner as shown in FIG. 1.
Example 17
Measurement of Restoration of Rat PBMC Proliferation
This assay was done to test the effect of peptides on the function of PBMC. As a consequence of the effect of peptide on the interaction between PD1 (expressed on PBMC) and its ligands (expressed on tumour cells) PBMC proliferation is affected. PBMC proliferation is expected to increase upon abrogation of binding between PD1 and its ligands in the presence of a disrupting peptide. In order to determine the effect of test compounds on this interaction, hPDL1 expressing MDA-MB231 cells (ATCC:CRL HTB-26) were seeded in a 24-well plate containing complete DMEM media (Sigma catalog no. D5648) where Geneticin at 100 μg/ml (Sigma, catalog no. G8168) was added for hPDL2 cells.
One milliliter of rat blood diluted with 5×DMEM medium along with PMA (Phorbol 12-myristate 13-acetate) at 6.25 ng/ml (Sigma, Cat. No. 8139) and Ionomycin at 0.5 μg/ml (Sigma, Cat. No. I0634) was overlaid on the top of the cells. Test compounds were added at appropriate concentration in a volume not exceeding 10 μl/well along with the blood to the respective wells and the plate was incubated in CO2 incubator at 37° C.
After forty eight hours, rat PBMC's were isolated using Histopaque1077 (Sigma, Cat. No. 10771) and the samples were fixed in 70% ethanol followed by treatment with RNase (Sigma, R6513) and stained with Propidium iodide (Sigma Cat. No. 81845). These samples were analyzed in BD FACS Calibur flow cytometer. As shown in FIG. 2, while minimal proliferation was observed for PMA stimulated PBMC cells in the presence of ligand expressing MDA-MB231 cells, the introduction of Compound #8 was able to restore proliferation effectively.
Example 18
Determination of Potency of Compound 8 in Rat PBMC Proliferation Rescue Assay
This study was completed using the protocol described earlier in example 17. Various concentrations of compound 8 were tested in this assay and potency of peptide compound 8 was determined in restoration of proliferation of PMA stimulated PBMCs. This assay was done in the context of PD-L1 expressing MDA-MB231 as shown in FIG. 3.
Example 19
Measurement of Restoration of Human PBMC Proliferation
Human blood was collected with heparin and was diluted with phosphate buffered saline and peripheral blood mononuclear cells (PBMC) were isolated using Histopaque. A 24-well plate was pre-coated with anti-Cd3 and anti-Cd28 (5 ug/ml) for 3 hours. Another plate was pre-coated with Isotype control antibodies (IgG1/IgG2a) for use as negative control for proliferation induction. The PBMCs were counted and seeded at 0.6 million cells/ml per well along with recombinant hPDL1 at 1 μg/ml per well followed by test compounds at the appropriate concentrations. The plate was incubated for 48 hours and PBMCs were collected and fixed with ethanol for analysis of cell cycle profile by propidium iodide staining. Data for restoration of human PBMC proliferation for tested compounds is shown in FIG. 4.
Example 20
The Effect of Peptides on Mouse Splenocyte Proliferation Inhibited by MDMBA231 Tumour Cells Expressing PDL1
Use of MDA-MB-231 Cells as a Source of PD-L1:
MDA-MB-231 cells were found to express PD-L1 by RT-PCR and therefore used as a source of PD-L1 in the assays.
Requirement:
Mouse splenocytes harvested from 6-8 weeks old C57 BL6 mice; RPMI 1640 (GIBCO, Cat #11875); DMEM with high glucose (GIBCO, Cat # D6429); Fetal Bovine Serum [Hyclone, Cat # SH30071.03]; Penicillin (10000 unit/ml)-Streptomycin(10,000 μg/ml) Liquid (GIBCO, Cat #15140-122); MEM Sodium Pyruvate solution 100 mM (100×), Liquid (GIBCO, Cat #11360); Nonessential amino acid (GIBCO, Cat #11140); L-Glutamine (GIBCO, Cat #25030); Anti-CD3 antibody (eBiosciences—16-0032); Anti-CD28 antibody (eBiosciences—16-0281); ACK lysis buffer (1 mL) (GIBCO, Cat #-A10492); Histopaque (density—1.083 gm/ml) (SIGMA 10831); Trypan blue solution (SIGMA-T8154); Hemacytometer (Bright line-SIGMA Z359629); FACS Buffer (PBS/0.1% BSA): Phosphate Buffered Saline (PBS) pH 7.2 (HiMedia TS1006) with 0.1% Bovine Serum Albumin (BSA) (SIGMA A7050) and sodium azide (SIGMA 08591); 5 mM stock solution of CFSE: CFSE stock solution was prepared by diluting lyophilized CFSE with 180 μL of Dimethyl Sulfoxide (DMSO C2H6SO, SIGMA-D-5879) and aliquoted in to tubes for further use. Working concentrations were titrated from 10 μM to 1 μM. (eBioscience—650850-85); 96-well format ELISA plates (Corning CLS3390); BD FACS caliber (E6016).
Protocol
Splenocyte Preparation:
Splenocytes harvested in a 50 ml falcon tube by mashing spleen in a 40 μm cell strainer were further treated with 1 ml ACK lysis buffer for 5 mins at RT. After washing with 9 ml of RPMI complete media, cells re-suspended in 3 ml of 1×PBS in a 15 ml tube. 3 ml of histopaque was added very carefully to the bottom of the tube without disturbing overlaying splenocyte suspension. Spin the tube at 800×g for 20 mins at RT. Opaque layer of lymphocytes is collected carefully without disturbing/mixing any of the layers. Cells washed twice with cold 1×PBS followed by total cell counting using trypan blue exclusion method and used further for cell based assays.
CFSE Proliferation Assay:
Tumour cells (MDMBA231) are cultured and maintained in high glucose complete DMEM media. 1×105 tumour cells were plated in 96 well plates along with required conc. of PD1 derived peptide and allowed to adhere at 37° C. for 4 hrs. 1×106 cells/ml of harvested splenocytes are treated with 5 μM of CFSE in pre warmed 1×PBS/0.1% BSA solution for 10 mins at 37° C. Excess CFSE was quenched using 5 volumes of ice-cold culture media to the cells and incubated on ice for 5 mins. CFSE labeled splenocytes were further given three washes with ice cold complete DMEM media. CFSE labeled 1×105 splenocytes added to above wells containing tumours cells and test compounds. Splenocytes were stimulated with anti-CD3 and anti-CD28 antibody (1 μg/ml each) and the co-culture was further incubated for 72 hrs at 37° C. with 5% CO2. Cells were harvested and washed thrice with ice cold FACS buffer and % proliferation was analyzed using a FACS caliber with 488 nm excitation and 521 nm emission filters. Each experimental condition was carried out in triplicates and each experiment at least carried out three times. Splenocyte proliferation was analyzed using cell quest FACS program and fold induction was calculated by normalizing individual values to percent background proliferation

Fold induction=Percent splenocyte proliferation/percent background proliferation

Stimulated splenocytes: Splenocytes+anti-CD3/CD28 stimulation

Background proliferation: Splenocytes+anti-CD3/CD28+Tumour

Percent Proliferation rescue={(compound percent proliferation−Background percent proliferation)/(Stimulated percent proliferation−Background percent proliferation)}*100.

(a) Comparison of Percentage Proliferation Rescue of Compound 8, 13 and 34 with mAb J43 Antibody.

mAb J43 (Int. Immunol. 1996-8(5):765-72) and test peptides were analysed for mouse splenocyte proliferation rescue studies using CFSE method as described protocol above and results are summarized in FIG. 5.
(b) Effect of Compounds on CFSE Based Mouse Splenocyte Proliferation Rescue Studies
The test compounds were analysed for mouse splenocyte proliferation rescue studies using the method as mentioned in protocol above and data is presented as percent activity in comparison with compound 8 peptide as in Table V.







TABLE V







Percent of activity for various compounds via Mouse splenocyte proliferation assay using CFSE method











Percent rescue with various




compounds (screened at 100 nM




concentration and compared with


Comp

100 nM Comp 8) in mouse splenocyte


No.
Sequence
proliferation CFSE based assay












1
SNTSESF-NH2 (SEQ ID NO: 42)
96.5


3
SNQTDKLAAFPEDSQPGQD-NH2 (SEQ ID NO: 44)
37.3


4
EDRSQPGQDCR-NH2 (SEQ ID NO: 45)
74.7


5
CGAISLAPKAQIKES-NH2 (SEQ ID NO: 46)
68


7
FRVTQK(SNTSESF)FRVTQLAPKAQIKE-NH2
61.5



(SEQ ID NO: 48)



8
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
100



(SEQ ID NO: 49)



9
SNQTDK (SNQTDK) FRVTQ LAPKAQIKE-NH2
11.3



(SEQ ID NO: 50)



10
SNQTDK (SNQTDK) VLNWYRMLAPKAQIKE-NH2
10.6



(SEQ ID NO: 51)



11
SNTSESFK(SNQTDK)FRVTQLAPKAQIKE-NH2
12.4



(SEQ ID NO: 52)



13
sntsesfk(sntsesf)frvtqlapkaqike-NH2 (SEQ ID NO: 54)
0-12 nM-control peptide


14
EKIQAKPAYWNLVK(KDTQNS)DTQNS-NH2
18



(SEQ ID NO: 55)



16
C6 lipid-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
45.8



(SEQ ID NO: 57)



17
Ac-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
32.9



(SEQ ID NO: 58)



20
SNTSESFK(CH3(CH2)4CO-SNTSESF)FRVTQLAPKAQIKE-NH2
27.8



(SEQ ID NO: 61)



21
CH3(CH2)4CO-SNTSESFK(CH3(CH2)4CO-SNTSESF)FRVTQLA
76.7



PKAQIKE-NH2 (SEQ ID NO: 62)



22
SNTSESFR5PKAR5SNTSESF (SEQ ID NO: 63)
71.4


25
SNTSESFK(SNTSESF)FRVTQLAQIKE (SEQ ID NO: 66)
27.6


26
SNTSESFFRVTQLAPKAQIKE-NH2 (SEQ ID NO: 67)
86.6


27
SNTSESFKFRVTQLAPKAQIKE-NH2 (SEQ ID NO: 68)
73.6


28
SNTSESFKSNTSESFFRVTQLAPKAQIKE-NH2
56.5



(SEQ ID NO: 69)



29
SNTSESFK(SNTSESF)-NH2 (SEQ ID NO: 70)
31.1


30
SNTSESFK(SNTSESF)LAPKAQIKE-NH2 (SEQ ID NO: 71)
58.8


31
SNTSESFK(SNTSESF)FRVTQKAQIKE-NH2
11.3



(SEQ ID NO: 72)



32
SNTSESFK(SNTSESF)KAQIKE-NH2 (SEQ ID NO: 73)
14.8


33
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)
98



E-NH2 (SEQ ID NO: 74)



34
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)
106



AQIKE-NH2 (SEQ ID NO: 75)



35
SNTSESFK(SNTSESF)FRVTQK(LAP)KAQIKE-NH2
81.2



(SEQ ID NO: 76)



36
SNTSESFK(SNTSESF)FRVTQLAK(PKA)QIKE-NH2
89.7



(SEQ ID NO: 77)



37
SNTSESFK(LAP)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 78)
89.60


38
LAPK(LAP)FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 79)
51.5


40
SNTSESFK(SNTSESF)FK(CH3(CH2)14CO))VTQLAPKAQIKE-
82



NH2 (SEQ ID NO: 81)




Arg in D strand replaced by Lys



41
SNTSESFK(SNTSESF)FRVTQLAP-NH2 (SEQ ID NO: 82)
5.1


42
SNTSESFFRVTQK(SNTSESF)LAPKAQIKE-NH2
52.9



(SEQ ID NO: 83)



43
FRVTQLAPKAQIKE-NH2 (SEQ ID NO: 84)
66


45
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)6CO)AQIKE-NH2
68



SEQ ID NO: 86)



46
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)
67



E-NH2 (SEQ ID NO: 87)



48
EKIQAKPALQTVRFK(FSESTNS)FSESTNS-NH2
25



(SEQ ID NO: 89)



49
ekiqakpalqtvrfk(fsestns)fsestns-NH2 (SEQ ID NO: 90)
73


60
Biotin-Ahx- sntsesfk(sntsesf)frvtqlapkaqike-NH2
14.9



(SEQ ID NO: 101)



61
Biotin-Ahx-EKIQAKPAYWNLVK(KDTQNS)DTQNS-NH2
67



(SEQ ID NO: 102)



62
SNTSESFK(SNTSESF)FRVTQLAPE*AQIK*E-NH2
37



(SEQ ID NO: 103)



63
SNTSESFK(SNTSESF)FK*VTQE*APKAQIKE
68



(SEQ ID NO: 104)



64
SNTSESFK(SNTSESF)FRVTE*LAPK*AQIKE
69.1



(SEQ ID NO: 105)



69
SNWSEDLK(SNWSEDL)FQIIQLHPKAKIEE-NH2
48



(SEQ ID NO: 110)



82
SNWSEDLK(SNWSEDL)FQIIQLHPK(CH3(CH2)14CO)
58.3



AKIEE-NH2 (SEQ ID NO: 123)



84
SNTSESFK(SNTSESF)FRVTQLAPK(MPA-
80.5



NH—CH2—CH2—O—CH2—CH2—O—CO)AQIKE-NH2




(SEQ ID NO: 125)



91
SNWSEDLK(SNWSEDL)FQIIQLHPK(MPA-
69.4



NH—CH2—CH2—O—CH2—CH2—O—CO)AKIEE-NH2




(SEQ ID NO: 132)









Example 21
Cytotoxic T Lymphocyte IFN-γ Assay
Tumour cells are cultured and maintained in high glucose complete DMEM media. 1×105 tumour cells were plated in 96 well plates along with required concentration of test compounds and allowed to adhere at 37° C. for 4 hrs. 1×105 of harvested splenocytes was added to wells containing tumours cells and test compounds. Splenocytes were stimulated with anti-CD3 and anti-CD28 antibody (1 μg/ml each) and the co-culture was further incubated for 72 hrs at 37° C. with 5% CO2. After 72 hours of incubation the cell culture supernatants were collected and processed for mouse IFN gamma measurement by ELISA following manufacturer's protocol (e Biosciences; 88-7314).
ELISA: As Per Manufacturer's Protocol
In brief, 96 well ELISA plates were coated with 100 μl/well of capture antibody in coating buffer and incubated overnight at 4° C. Plates washed five times with wash buffer and further blocked with 200 μl of 1× assay diluents for 1 hr at RT. Following wash step, 100 μl of cell culture supernatants were added to wells and further incubated for 2 hrs at RT. Appropriate standards were also included. After the wash step, plates were incubated for one hour with 100 μl/well of detection antibody. Wash steps were repeated and the plates were incubated for 30 minutes with 100 μl/well of Avidin-HRP. The plates were washed again several times with wash buffer and incubated for 15 minutes with 100 μl/well of substrate solution. 50 μl of stop solution was added to each well, and the plates were read at 450 nm. The absorbance values were then plotted against the standards and the concentration of IFN-γ was determined using Graph Pad Prism software (FIG. 6). Each experimental condition was carried out in triplicates and each experiment at least carried out three times.

Fold induction ═IFN-γ released by stimulated splenocyte in absence or presence of compound/Background IFN-γ release

Stimulated splenocytes: Splenocytes+anti-CD3/CD28 stimulation in absence or presence of test compound

Background IFN-γ release: Splenocytes+anti-CD3/CD28+Tumour

Example 22
In Vivo Efficacy of Compound #8 on Primary Tumour Growth and Lung Metastasis in B16F10 subcutaneous melanoma model
Animals:
C57/Black6 female mice (Aurigene, Bangalore, India) aged 6 to 8 weeks were used for the experiment. Animals were acclimatized for a week in the experimental room before conducting the experiment.
On day 0, B16F10 cells grown in DMEM containing 10% FBS at 70 to 75% confluency were harvested and 1×106 cells per animal were injected to mice subcutaneously on the right flank region. On day 1, peptide (Compound #8) at 5 mg/kg dose dissolved in PBS, pH 7.4 was dosed subcutaneously at the rate of 10 ml/kg volume for fourteen days once daily. Vehicle control group of mice received only saline. Each group consisted of ten animals. Body weight and clinical signs were recorded daily. Tumour volume was measured by slide callipers. Compound #8 dosed at 5 mg/kg, inhibited the tumour growth to the extent of 44 percent (p<0.001, 2-way ANOVA). There was no body weight reduction during the period of dosing and no clinical signs observed. Mean tumour volume of vehicle treated animals was 496 mm3, whereas Compound #8 treated animals showed 276 mm3 at the end of 14 days dosing period (FIG. 7). At the end of dosing period lung was harvested and analysed for metastasis by counting the black nodules. It was observed that Compound 8 showed greater than 60 percent reduction in metastasis. The picture of lung treated with vehicle and Compound 8 is shown as (FIG. 8)
Example 23
In Vivo Efficacy of Compounds #8, 34, 69, 82, 83, 91 on Inhibition of Metastasis in B16F10 Metastasis Model
In the case of metastasis model, 0.1×106 B16F10 cells were injected i.v. to C57/Black6 mice. Test compounds dissolved in PBS, pH 7.4 was dosed subcutaneously at 5 mg/kg once daily. Vehicle control group of mice received only saline. Each group consisted of ten animals. Body weight and clinical signs were recorded daily. After 11 days of treatment, lung metastasis was quantitated by counting number of nodules under dissection microscope. FIG. 9 shows that at the end of 11 days of dosing.
Example 24
Effect of Compound #8 in 4T1 Orthotopic Mammary Carcinoma Model
On day 0, 4T1 cells grown in RPMI 1640 containing 10% FBS at 70 to 75% confluency were harvested and 0.1×106 cells per animal were injected along with matrigel orthotopically to mammary fat pad. On day 1, peptide (Compound #8) at 3 mg/kg dose dissolved in PBS, pH 7.4 was dosed subcutaneously at the rate of 10 ml/kg volume for 5.5 weeks once daily. Vehicle control group of mice received only saline. Each group consisted of ten animals. Body weight and clinical signs were recorded daily. Tumour volume was measured by slide callipers. At the end of the study, metastasis to lungs was quantitated by counting the number of tumour nodules on the lung using dissection microscope. FIG. 10 shows that at the end of 40 days of dosing, Compound #8 dosed at 3 mg/kg inhibited the primary tumour volume to the extent of 44 percent. There was no body weight reduction during dosing period. Ten percent of the animals in the Compound #8 treated group showed complete regression and another ten percent showed partial regression of tumour growth. On the 40th day, animals were euthanized and their lungs were observed for tumour nodules under the dissection microscope. One animal though the tumour volume was similar to vehicle treated group, there was complete inhibition of metastasis (no tumour nodules were seen). The animal that showed complete regression in primary tumour volume also showed no visible tumour nodules. Compound #8 treated animals showed mean reduction in metastasis to the extent of >60 percent.
Example 25
Effect of Compound 34 & 83 in Renal Cell Carcinoma Model
Female 6- to 8-week-old BALB/c mice were kept in a temperature-controlled room on a 12/12 h light/dark schedule with food and water ad libitum. RENCA cells harvested from non confluent monolayer were injected under the renal capsule on day 1 without opening the peritoneum. The skin incision was closed with auto suture clips. Renca cells (15×104) in 40 μl of medium were injected under the kidney capsule of mice on day 1. Peptides were dosed subcutaneously from day 2 at 5 mpk, qd for 21 days. At the end of dosing (21 days) animals were euthanized and tumour weight of the left and right kidney (control) were measured and plotted as percent inhibition as shown in FIG. 11.
Example 26
Procedure for Minimum Inhibitory Concentration (MIC) Determination by Broth Microdilution Method
Required quantity of the compound was weighed and dissolved in water/dimethyl sulphoxide/suitable solvent to yield 1 mg/ml stock solution. The stock solution was diluted in MHB/CAMHB to yield 8 μg/ml or 64 μg/ml or 512 μg/ml solution as per requirement. Serial two fold dilutions of the compound was prepared using MHB/CAMHB in 96 well microtitre trays using a multichannel pipette. Organisms were grown in MHB/CAMHB for 4-5 hrs at 35±2° C., 110±10 rpm. Optical density (OD) of the cultures is adjusted to 625 nm which corresponds to 0.5 Mc Farland standard (1-2×108 cfu/ml) and further diluted to achieve a final inoculum of (5±5)×104 cfu/well. Broth, compound and organism controls were set up. Microdilution trays were incubated at 35±2° C. for 16-20 hours in an ambient air incubator. After the incubation period, growth of organism in the wells was detected by unaided eye facilitated by a viewing device. The lowest concentration of antimicrobial agent that completely inhibits growth of the organism as detected by the unaided eye was taken as MIC. MIC value indicates that test compound 8 (MIC (μg/ml)→32) do not exhibit any antibacterial activity, whereas the standards viz, levofloxacin and ciprofloxacin shows an MIC ((μg/ml) values of 0.015 and 0.007 in the same experiment.
Example 27
In Vivo Efficacy of Compound # in Mouse Model of E. coli Sepsis
Materials and Methods
Bacterial strain used was E. coli ATCC 25922 and bacterial suspension was prepared in normal saline to obtain an inoculum of  ̃5×108 CFU/ml. BALB/c or Swiss albino mice weighing 18-22 gms were used for the study. Animals were quarantined for a period of 5 days in individually ventilated cages (IVCs). Food and water was provided ad libitum. Temperature was maintained at 22-26° C. with a light dark cycle of 12 hrs.
Procedure
The final inoculum containing  ̃1-2×108 CFU/ml was administered to the animals by intravenous route. Treatment was initiated after 24 hrs of infection and the compound was administered thrice a day at an interval of 3 hours for 2 days. One group of animals was kept untreated to serve as infection control. After completion of treatment for two days, all the animals (treated and untreated) were sacrificed 3 hrs after the last dose and various organs (kidneys, spleen & lungs) were collected aseptically and processed for enumeration of bacterial counts. Organ samples collected were homogenized, serially diluted in normal saline and plated on TSA plates. The plates were incubated at 35±2° C. for 18-24 hrs and bacterial counts enumerated. Results were analyzed by comparing treated Vs control animals & suitable statistical method was applied to calculate the statistical significance as shown in FIG. 12.

## Claims

1. A compound of formula (I)



or pharmaceutically acceptable salt thereof;
wherein;
the compound comprises at least 5 amino acids,
A is an amino acid sequence SNTSESF (SEQ ID NO: 4);
B is an amino acid sequence SNTSESF (SEQ ID NO: 4);
Z is
(i) from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, G strand, C strand, F strand, C′ strand, C′′ strand, C′′-D loop, C′ strand to C′—C′′ loop, C′ strand to C′′ strand or D strand to DE loop;
(ii) G-L-Z′
G is an amino acid sequence of from three amino acids to the full length of a peptide sequence of mammalian PD1 ectodomain fragments from D-strand or is absent;
L is selected from —CO(CH2)n—NH—, or PEG 2-20 KD;
‘n’ is an integer selected from 2 to 10, both inclusive; and
Z′ is one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from FG loop and G-strand; or

(iii) from one to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from D-strand, FG loop and G strand, wherein two or more amino acids of the peptide sequence combine together to form a lactam bond between any of the two fragments or within the fragment;
D is up to two peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, FG loop, C C′ loop to C′ strand or is absent;
E is up to four peptide sequences arranged in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, C C′ loop to C′ strand, G strand, FG loop to G strand or is absent;
X is lysine;
X′ is selected from lysine, ornithine, diaminopropionic acid, diaminobutyric acid or olefinic amino acid of formula





which is optionally linked with an additional lysine; or
X′ is absent;
‘m’ is an integer selected from 1 to 6, both inclusive;
R1 is selected from group consisting of C2-C20 acyl, PEG 2-20 KD moiety; or absent;
R2 and R3 are independently selected from group consisting of C2-C20 acyl, PEG 2-20 KD, absent or Ra-L′;
Ra is selected from biotin or maleimido propionic acid;
L′ is selected from linkers —CO(CH2)n—NH—, —CO(CH2—CH2—O—)n NH or —COCH2(—OCH2—CH2)nNH—; and
‘n’ is an integer selected from 2 to 10, both inclusive;

R4 and R5 are independently NH2, or one or both of R4 or R5 are absent with the proviso to the compound of Formula I, that in a compound of Formula I as above defined:
a) up to 5 but not more than 25% of the amino acids may be substituted with other natural or unnatural amino acids;
b) not more than 30% of the amino acids may be omitted;
c) in each said peptide sequence up to 2 amino acids may be added individually at any position;
d) up to 5 but not more than 25% of the peptide bonds may instead be replaced by reduced amide bond (—CH2NH—);
e) up to 100% of the amino acids may be D-amino acids;
f) up to 100% of the amino acids may be in reverse order.

2. The compound according to claim 1, wherein said mammalian PD1 ectodomain fragments are from human, murine, dog, horse or rat PD1.

3. The compound according to claim 1, wherein Z consists of one said peptide sequence.

4. The compound according to claim 1, wherein Z is a combination of D strand, FG loop and G strand.

5. The compound according to claim 1, wherein X is lysine and X′ is absent.

6. The compound according to claim 1, wherein both X and X′ are lysine.

7. The compound according to claim 1, wherein R2 and R3 are selected from C2-C20 acyl, or Ra-L′; wherein,
Ra is maleimido propionic acid;
L′ is —COCH2(—OCH2—CH2)nNH—; and
‘n’ is an integer selected from 2 to 10, both inclusive.

8. The compound according to claim 1, wherein X′, D, E and R5 are absent and R4 is NH2.

9. The compound according to claim 1, wherein the compound is selected from:












Comp.

Sequence


No.
Compound
ID

















8
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
49


13
SNTSESFK (SNTSESF) FRVTQLAPKAQIKE-NH2
54



All D-amino acids



15
Biotin-Ahx-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
56



Ahx = 6-aminohexanoic acid



16
C6 lipid-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
57


17
Ac-SNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
58


18
SNTSESFK(NH2-[PEG]11-CO-SNTSESF)FRVTQLAPKAQIKE-NH2
59


19
SNTSESFK(SNTSESF)-NH-[PEG]11-CO-)LAPKAQIKE-NH2
60


20
SNTSESFK(CH3(CH2)4COSNTSESF)FRVTQLAPKAQIKE-NH2
61



Lipid in branch



21
CH3(CH2)4CO-SNTSESFK(CH3(CH2)4CO-
62



SNTSESF)FRVTQLAPKAQIKE-NH2




Lipid on both Branch & N-termini



25
SNTSESFK(SNTSESF)FRVTQLAQIKE-NH2
66


29
SNTSESFK(SNTSESF)-NH2
70


30
SNTSESFK(SNTSESF)LAPKAQIKE-NH2
71


31
SNTSESFK(SNTSESF)FRVTQKAQIKE-NH2
72


32
SNTSESFK(SNTSESF)KAQIKE-NH2
73


33
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)E-NH2
74


34
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE-NH2
75


35
SNTSESFK(SNTSESF)FRVTQK(LAP)KAQIKE-NH2
76


36
SNTSESFK(SNTSESF)FRVTQLAK(PKA)QIKE-NH2
77


40
SNTSESFK(SNTSESF)FK(CH3(CH2)14CO))VTQLAPKAQIKE-NH2 
81



Arg in D strand replaced by Lys



41
SNTSESFK(SNTSESF)FRVTQLAP-NH2
82


44
SNTSESFK(SNTSESF)FK(CH3(CH2)6CO)VTQLAPKAQIKE-NH2
85



Arg in D strand replaced by Lys



45
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)6CO)AQIKE-NH2
86


46
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)E 
87


47
SNTSESFK(sntsesf)FRVTQLAPKAQIKE
88



D-amino acids in the branch



48
EKIQAKPALQTVRFK(FSESTNS)FSESTNS-NH2
89


49
EKIQAKPALQTVRFK(FSESTNS)FSESTNS-NH2
90



Retro inverso (All D-amino acid)



50
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG-20KD)E-NH2
91


51
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG-20KD)E-NH2
92


52
SNTSESFK(SNTSESF)FRVTQLAPK(PEG 20 KD)AQIKE-NH2
93


53
SNTSESFK(SNTSESF)FK(mini PEG)VTQLAPKAQIKE-NH2
94



Arg in D strand replaced by Lys



54
SNTSESFK(SNTSESF)FRVTQLAPK(PEG 10KD)AQIKE-NH2
95


55
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(PEG20KD)E-NH2
96


56
SNTSESFK(SNTSESF)FK(CH3CO)VTQLAPKAQIKE-NH2
97


57
SNTSESFK(SNTSESF)FRVTQLAPK(CH3CO)AQIKE-NH2
98


58
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(CH3CO)E-NH2
99


59
SNTSESFK(SNTSESF)FRVTQLAPK(CH3—(CH2)4—CO)AQIKE-NH2
100


60
Biotin-Ahx-SNTSESFK(SNTSESF)FRVTQLAPKAGIKE-NH2
101



All D Amino acids



62
SNTSESFK(SNTSESF)FRVTQLAPE*AQIK*E-NH2
103



Lactam bond formed between asterisked(*) amino acids



63
SNTSESFK(SNTSESF)FK*VTQE*APKAQIKE-NH2
104



Lactam bond formed between asterisked(*) amino acids



64
SNTSESFK(SNTSESF)FRVTE*LAPK*AQIKE
105



Lactam bond formed between asterisked(*) amino acids



65
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)6CO)E
106


66
CH3CO-SNTSESFK(CH3CO-SNTSESF)FRVTQLAPKAQIK(CH3(CH2)14CO)E
107


67
CH3CO-SNTSESFK(CH3COSNTSESF)FRVTQLAPKAQIK(CH3(CH2)10CO)E
108



at Lys



68
CH3CO-SNTSESFK(CH3CO-
109



SNTSESF)FRVTQLAPKAQIK(CH3(CH2)4CO)E



77
SNTSESFK(SNTSESF)GIYLCGAISLAPKAQIKE-NH2
118


78
SNTSESFK(SNTSESF)VLNWYRMLAPKAQIKE-NH2
119


83
SNTSESFK(SNTSESF)FRVTQLAPK(MPA- 
124



NH—CH2—CH2—O—CH2—CH2—OCO)AQIKE-NH2



84
SNTSESFK(sNTSESF)FRVTQLAPKAQIKE-NH2
125


85
sNTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
126


86
sNTSESFK(sNTSESF)FRVTQLAPKAQIKE-NH2
127


87
SNTSESFK(SNTSESF)FRVTQLAPKAQIK(MPA- 
128



NH—CH2—CH2—O—CH2—CH2—O—CO)E-NH2



88
SΨ[CH2NH]NTSESFK(SΨ[CH2NH]NTSESF)FRVTQLAPKAQIKE-NH2
129


89
SnTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
130



D-Asn at N-terminus



90
SNTSESFK(SnTSESF)FRVTQLAPKAQIKE-NH2
131



D-Asn in the branch



92
SNTSESFK(SNTSESF)FRVTQLAPKAQIKE
133


93
SΨ[CH2NH]NTSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
134


94
SNTSESFK(SΨ[CH2NH]NTSESF)FRVTQLAPKAQIKE-NH2
135


95
SNΨ[CH2NH]TSESFK(SNTSESF)FRVTQLAPKAQIKE-NH2
136


96
SNTSESFK(SNΨ[CH2NH]TSESF)FRVTQLAPKAQIKE-NH2
137


97
SNΨ[CH2NH]TSESFK(SNΨ[CH2NH]TSESF)FRVTQLAPKAQIKE-NH2 
138


98
SNTSESFK(SNTSESF)FRVTQLAPK(CH3(CH2)14CO)AQIKE
139


102
SNTSESFK(SNTSESF)FRVTQLAPK*IAQE*KE-NH2
143



Lactam bond formed between asterisked(*) amino acids



103
SNTSESFK(SNTSESF)K*RVTE*LAPKAQIKE-NH2 
144



Lactam bond formed between asterisked(*) amino acids



104
SNTSESFK(SNTSESF)FRK*TQLE*PKAQIKE-NH2 
145



Lactam bond formed between asterisked(*) amino acids



105
SNTSESFK(SNTSESF)FRVE*QLAK*PAQIKE-NH2 
146



Lactam bond formed between asterisked(*) amino acids.

10. A compound according to claim 1 having formula (Ia)




or pharmaceutically acceptable salt thereof;
wherein;
A is an amino acid sequence SNTSESF (SEQ ID NO: 4);
B is an amino acid sequence SNTSESF (SEQ ID NO: 4);
Z is from one to three peptide sequences arranged in any order each being of from three amino acids up to the full length of a peptide sequence of human or murine PD1 ectodomain fragments selected from D strand, FG loop, G strand, C strand and F strand;

X is lysine;
R1 is selected from the group consisting of C2-C20 acyl, PEG 2-20 KD moiety; or absent;
R2 and R3 are independently selected from group consisting of C2-C20 acyl, PEG 2-20 KD, absent or Ra-L′;
Ra is selected from biotin or maleimido propionic acid;
L′ is selected from linkers —CO(CH2)n—NH—, —CO(CH2—CH2—O—)n NH or —COCH2(—OCH2—CH2)nNH—; and
‘n’ is an integer selected from 2 to 10, both inclusive; and

R4 is NH2.

11. The compound according to claim 10, wherein Z is a combination of D strand, FG loop and G strand.

12. The compound according to claim 10, wherein R1, R2 and R3 are absent.

13. The compound according to claim 10, wherein R3 is C16-acyl.

14. The compound according to claim 10, wherein up to three amino acids are D-amino acids.

15. The compound according to claim 10, wherein all amino acids are D-amino acids.

16. The compound according to claim 10, comprising up to three reduced amide bonds (—CH2NH—).

17. The compound according to claim 1, wherein Z is three peptide sequences arrange in any order each being of from three amino acids up to the full length of a mammalian PD1 ectodomain fragment selected from BC loop, D strand, FG loop, G strand, C strand, F strand, C′ strand, C′′ strand, C′′-D loop, C′ strand to C′C′′ loop, C′ strand to C′ strand or D strand to DE loop.

18. A pharmaceutical composition comprising a compound of formula (I) or a pharmaceutically acceptable salt thereof as claimed in claim 1, and a pharmaceutically acceptable diluent or carrier.

19. A method of modulating an immune response mediated by PD-1 signaling pathway in a subject, comprising administering to the subject therapeutically effective amount of compound according to claim 1, such that the immune response in the subject is modulated.

20. A method of inhibiting growth of tumour cells and/or metastasis in a subject, comprising administering to the subject a therapeutically effective amount of compound according to claim 1, capable of inhibiting the programmed cell death 1 (PD1) signaling pathway.

21. The method of claim 20, wherein the tumour cells are of a cancer selected from the group consisting of melanoma, renal cancer, prostate cancer, breast cancer, colon cancer and lung cancer.

22. The method of claim 20, wherein the tumour cells are of a cancer selected from the list consisting of bone cancer, pancreatic cancer, skin cancer, cancer of the head or neck, cutaneous or intraocular malignant melanoma, uterine cancer, ovarian cancer, rectal cancer, cancer of the anal region, stomach cancer, testicular cancer, uterine cancer, carcinoma of the fallopian tubes, carcinoma of the endometrium, carcinoma of the cervix, carcinoma of the vagina, carcinoma of the vulva, Hodgkin's Disease, non-Hodgkin's lymphoma, cancer of the esophagus, cancer of the small intestine, cancer of the endocrine system, cancer of the thyroid gland, cancer of the parathyroid gland, cancer of the adrenal gland, sarcoma of soft tissue, cancer of the urethra, cancer of the penis, chronic or acute leukemias including acute myeloid leukemia, chronic myeloid leukemia, acute lymphoblastic leukemia, chronic lymphocytic leukemia, solid tumours of childhood, lymphocytic lymphoma, cancer of the bladder, cancer of the kidney or ureter, carcinoma of the renal pelvis, neoplasm of the central nervous system (CNS), primary CNS lymphoma, tumour angiogenesis, spinal axis tumour, brain stem glioma, pituitary adenoma, Kaposi's sarcoma, epidermoid cancer, squamous cell cancer, T-cell lymphoma, environmentally induced cancers including those induced by asbestos, and combinations of said cancers.

23. A method of treating an infectious disease in a subject comprising administering to the subject a therapeutically effective amount of compound according to claim 1, capable of inhibiting the programmed cell death 1 (PD1) signaling pathway such that the subject is treated for the infectious disease.

24. A method of treating bacterial and viral infections in a subject comprising administering to the subject a therapeutically effective amount of compound according to claim 1, capable of inhibiting the programmed cell death 1 (PD1) signaling pathway such that the subject is treated for the bacterial and viral infections.