NUCLEAR HORMONE RECEPTOR DRUG SCREENS

Abstract: Methods for identifying modulators of nuclear hormone receptor function comprise the steps of (a) forming a mixture comprising a nuclear hormone receptor, a peptide sensor and a candidate agent, but not a natural coactivator protein of the receptor, wherein the sensor provides direct, in vitro binding to the receptor under assay conditions; (b) measuring an agent-biased binding of the sensor to the receptor; and (c) comparing the agent-biased binding with a corresponding unbiased binding of the sensor to the receptor. In particular embodiments, the sensor comprises an amphipathic alpha helix nuclear hormone interacting domain comprising a recited nuclear hormone transcriptional coactivator motif sequence, the sensor is present at sub-micromolar concentration, the binding reaction occurs in solution, the sensor comprises a fluorescent label and the measuring step comprises detecting fluorescence polarization of the label. Reagents include labeled sensor peptides and reaction mixtures consisting essentially of nuclear hormone receptor, a peptide and a candidatent.

Description: Nuclear Hormone Receptor Drug Screens INTRODUCTION Field of the Invention The field of this invention is screens for drugs effecting nuclear hormone receptor function. Background Nuclear hormone receptors comprise a large, well-defined family of ligand-activated transcription factors which modify the expression of target genes by binding to specific cis- acting sequences (Laudet et al., 1992, EMBO J, Vol, 1003-1013; Lopes da Silva et al., 1995, TINS 18, 542-548; Mangelsdorf et al., 1995, Cell 83, 835-839; Mangelsdorf et al., 1995, Cell 83, 841-850). Family members include both orphan receptors and receptors for a wide variety of clinically significant ligands including steroids, vitamin D, thyroid hormones, retinoic acid, etc. Ligand binding is believed to induce a conformational change in the receptors and promote their association with transcriptional coactivators, which are a diverse group of large nuclear proteins (Glass et al., 1997, Curr Opn Cell Biol 9, 222-232), which may share a signature sequence motif (Heery et al., 1997, Nature 733-736). The resulting complex then binds high affinity sites in chromatin and modulates gene transcription. The classic approach to identifying agonists or antagonists of nuclear hormone receptors is the ligand displacement assay, where the displacement of radiolabeled ligand by candidate agents is detected. An alternative approach is a cell-based transcription assay for expression of a reporter of nuclear hormone receptor activation (e.g. Evans et al. (1991) US Patent No.5,071,773). More recently, a gel-based coactivator dependent receptor ligand assay (Krey et al., 1997, Mol Endocrinol 11, 779-791) has been used to identify ligands of peroxisome proliferator- activated receptors (PPARs), which are nuclear hormone receptors activated by a variety of compounds including hypolipidemic drugs. Unfortunately, these various assays suffer from a number of limitations including a required known ligand and time, labor and resource intensive cell-based and gel-based methods, respectively. SUMMARY OF THE INVENTION The invention provides methods and compositions for efficient screening of modulators of nuclear hormone receptor function, without the use of cell- or gel-based steps. The methods are amenable to automated, cost-effective high throughput screening of chemical libraries for bioactive compounds. In one embodiment, the invention provides in vitro methods comprising the steps of (a) forming a mixture comprising a nuclear hormone receptor, a peptide sensor and a candidate agent, but not a natural coactivator protein of the receptor, wherein the sensor provides direct, in vitro binding to the receptor under assay conditions; (b) measuring an agent-biased binding of the sensor to the receptor; and (c) comparing the agent-biased binding with a corresponding unbiased binding of the sensor to the receptor, wherein a difference between the biased and unbiased bindings indicates that the agent modulates a receptor function. In particular embodiments, the sensor comprises an amphipathic alpha helix nuclear hormone interacting domain comprising a nuclear hormone transcriptional coactivator motif sequence. To ensure specificity and optimize binding, the sensor is generally present at sub-micromolar concentration and the binding reaction occurs in solution. In a preferred embodiment, the sensor comprises a fluorescent label and the measuring step comprises detecting fluorescence polarization of the label. The invention also provides reagents such as labeled sensor peptides and reaction mixtures consisting essentially of nuclear hormone receptor, a peptide and a candidate agent, wherein the peptide provides direct, in vitro ligand-dependent binding to the receptor, especially in which the binding is enhanced in the presence of the agent. BRIEF DESCRIPTION OF THE FIGURES Figure 1. LXR activation dose response with oxysterol ligands in fluorescent polarization assay with TUK-1391 sensor. Figure 2. Dose response showing 24-ketocholesterol ligand (2 μM) increases LXR receptor affinity for labeled peptide sensor in fluorescent polarization assay. Figure 3. Dose response showing 9-cis-retinoic acid ligand (1 μM) increases RXR receptor affinity for labeled peptide sensor in fluorescent polarization assay. Figure 4. Fluorescent polarization NRH agonist assay validation for LXR/24- ketocholesterol ligand (2 μM), PPARγ/BRL49653 (1 μM) and RXR/9-cis- retinoic acid ligand (1 μM) with TUK-1391 sensor. DETAILED DESCRIPTION OF THE INVENTION The methods generally employ a mixture comprising three components: a nuclear hormone receptor, a peptide sensor and a candidate agent, in amounts effective to measure the targeted interactions. Many natural nuclear hormone receptors are modular proteins with discrete functional domains, including a ligand binding domain; see Laudet et al.; Lopes da Silva et al.; Mangelsdorf et al.; supra. The subject receptors encompass such full-length receptors as well as portions of the receptors sufficient to provide differential sensor binding in the presence and absence of a corresponding receptor ligand, agonist and/or antagonist. Such portions generally comprise at least the ligand binding domain of the receptor. A wide variety of molecular and biochemical methods are available for biochemical synthesis, molecular expression and purification of the subject compositions, see e.g. Molecular Cloning, A Laboratory Manual (Sambrook, et al. Cold Spring Harbor Laboratory), Current Protocols in Molecular Biology (Eds. Ausubel, et al., Greene Publ. Assoc, Wiley- Interscience, NY) or that are otherwise known in the art. Exemplary nuclear hormone receptors and corresponding target therapeutic application are listed in Table 1. Table 1. Exemplary nuclear hormone receptors, form (M = monomeric, D = heterodimeric, H = homodimeric), tissue expression and target therapeutic application. Receptor Form Tissue Expression Target Therapeutic Application NURR1 M/D Dopaminergic Neurons Parkinson's Disease RZRβ M Brain (Pituitary), Muscle Sleep Disorders RORα M Cerebellum, Purkinje Cells Arthritis, Cerebellar Ataxia NOR-1 M Brain, Muscle, Heart, Adrenal, Thymus CNS Disorders, Cancer Rev-ErbAβ H Brain, Muscle, Spleen CNS Disorders Tlx H Embryonic and Adult Brain CNS Disorders NGFI-Bβ M/D Brain CNS Disorders HZF-2 H Hippocampus CNS Disorders COUP-TF H Brain CNS Disorders COUP-TFβ H Brain CNS Disorders COUP-TFγ H Brain CNS Disorders Nur77 M/D Brain, Thymus, Adrenals CNS Disorders LXRc D Liver, Kidney, Spleen, Adrenals Hypercholesterolemia COR M Liver, Pancreas Hypercholesterolemia Rev-ErbAα H Muscle, Brain (Ubiquitous) Obesity HNF4 H Liver, Kidney, Intestine Diabetes TOR M Thymus, T Cells, Lymphoma Immune Disorders MB67 D Liver Metabolic Disorders SHP D Liver, Heart, Pancreas Metabolic Disorders FXR D Liver, Kidney Metabolic Disorders SF-1 M Gonads, Pituitary Metabolic Disorders LXRβ D Kidney (Ubiquitous) Metabolic Disorders GCNF M/H Testes, Ovary Infertility TR2-l lα,β H Testes Infertility, Contraception TR4 H Testes Infertility, Contraception ERR ,β M Placenta Infertility DAX-1 M Testes, Adrenals, Ovary, Liver Adrenal Hypoplasia, Hypogonadism The mixture also includes a peptide sensor which provides direct, in vitro, significant assay detectable binding to the receptor under assay conditions. Accordingly, the sensor obviates the need to include a natural coactivator protein of the receptor in the mixture. The sensor comprises a receptor binding sequence, generally L i X l X 2 2 L 3 , wherein L,-L 3 are independently selected from hydrophobic amino acids, preferably leucine or isoleucine, more preferably leucine; and XpX 2 are independently selected from any amino acid, preferably any natural amino acid. The sensor region comprising this sequence generally forms an amphipathic alpha helix. Such sequences may be natural coactivator protein motif sequences, derived from coactivator motif sequences or consensus sequences thereof, e.g. by step-wise mutational analysis, and/or from screens of purely or partly synthetic sequences, e.g. randomizing residues and selecting for receptor binding. The sensors are of length and sequence sufficient to effect the requisite specific binding, generally 50 or fewer, preferably 24 or fewer, more preferably 12 or fewer residues in length. Accordingly, panels of predetermined or randomized candidate sensors are readily screened for receptor binding. For example, in the high-throughput fluorescent polarization assay (below), candidate sensors demonstrating specific binding are conveniently identified by enhanced fluorescent polarization, generally an increase of at least about 5, preferably at least about 10, more preferably at least about 20 millipolarization units under optimized binding assay conditions. In a particular embodiment, the sensors demonstrate ligand, agonist and/or ligand dependent binding i.e. the sensor differentially binds the receptor in the presence and absence of such ligand/agonist/antagonist, generally differential binding of at least 10/10%, preferably at least 100/50%, more preferably at least 1,000/90%, respectively. Accordingly, panels of predetermined or randomized candidate sensors are readily screened for differential binding, as exemplified in Figures 2 and 3 for two exemplary receptor/ligand pairs. Analogously, differential binding is conveniently demonstrated using known agonists or antagonists of targeted receptors. For orphan receptors, it is often convenient to prescreen known ligands for pseudo-ligands or surrogates which selectively bind the ligand binding domain. Alternatively, agonists and/or antagonists may be identified by screening predetermined or randomized candidate labeled peptides for sensors which demonstrate assay detectable receptor binding, and then screening for agents which increase/decrease the binding of the identified sensor to the receptor, i.e. agonists/antagonists, respectively. Exemplary sensors and binding data are shown in Table 2. Table 2. Sensors Activity: Fluorescent Polarization Assay Sensor Label Sequence LXR PPARγ RXR SRC-1 632-640 TUK-1384 F- KLVQLLTTT (SEQ ID NO:l) I O O TUK-1386 F-G- KLVQLLTTT I O O TUK-1385 R- KLVQLLTTT π+ I π+ TUK-1387 R-G- KLVQLLTTT + O π SRC-1 689-696 TUK-1370 F- ILHRLLQE (SEQ ID NO:2) π O π TUK-1371 R- ILHRLLQE IV 1+ IV TUK-1373 R-G- ILHRLLQE π O π+ SRC-1 748-755 TUK-1390 F- LLRYLLDK (SEQ ID NO: 3) IV π π+ TUK-1392 F-G- LLRYLLDK π+ I I TUK-1391 R- LLRYLLDK rv π+ rv TUK-1393 R-G- LLRYLLDK m+ I π+ SRC-1 748-754 TUK-1453 R R-- LLRYLLD (SEQ ID NO:4) m 1+ SRC-1 749-754 TUK-1455 R R-- LRYLLD (SEQ ID NO:5) rv 1+ SRC-1 748-753 TUK-1457 R R-- LLRYLL (SEQ ID NO:6) π SRC-1 749-753 TUK-1459 R R-- LRYLL (SEQ ID NO:7) in O SRC-1 748-756 TUK-1472 R R-- LLRYLLDKD (SEQ ID NO:8) IV π rv SRC-1 747-756 TUK-1473 R R-- QLLRYLLDKD (SEQ ID NO:9) IV 1+ 1+ SRC-1 746-756 TUK-1474 R R-- HQLLRYLLDKD (SEQ ID NO:10) IV O I SRC-1 1427-1440 TUK-1395 F- PQAQQKSLLQQLLT (SEQ ID NO: 11 )O O O TUK-1397 F-G- PQAQQKSLLQQLLT O O O TUK-1398 R-G- PQAQQKSLLQQLLT O O O SRC-1 1434-1441 TUK-1380 F- LLQQLLTE (SEQ ID NO:12) π+ O O TUK-1382 F-G- LLQQLLTE H+ O O TUK-1381 R- LLQQLLTE IV 1+ 1+ TUK-1383 R-G- LLQQLLTE LI O O RIP- 140 496-506 TUK-1374 F- VTLLQLLLG (SEQ LD NO: 13) IV I O TUK-1376 F-G- VTLLQLLLG H+ + O TUK-1375(1433)R- VTLLQLLLG IV I O TUK-1377 R-G- VTLLQLLLG π I + Svnthetic sequence peptides TUK-1560 R- ILRKLLQE (SEQ ID NO:14) rv π rv TUK-1559 R- ILKRLLQE (SEQ ID NO:15) rv 0 rv TUK-1558 R- ILRRLLQE (SEQ ID NO:16) m 0 rv TUK-1557 R- ILKKLLQE (SEQ ID NO:17) m+ 0 rv The sensor also comprises a detectable label. A wide variety of labels may be used including labels providing for direct detection such as radioactivity, luminescence, optical or electron density, etc. or indirect detection such as an epitope tag, etc. A variety of methods may be used to detect the label depending on the nature of the label and other assay components, e.g. through optical or electron density, radiative emissions, nonradiative energy transfers, etc. or indirectly detected with antibody conjugates, etc. In a particular embodiment, the label is differentially detectable according to receptor binding, obviating the need for any bound versus unbound separation step. In a more particular embodiment, the label is a fluorescent label which provides differential fluorescence polarization depending on receptor binding. Exemplary such labels include rhodamine and fluorescein, which may be coupled directly or indirectly though a linker, e.g. an amino acid linker. Suitable labels and methods for peptide conjugation/incorporation (e.g. during solid phase peptide synthesis) are well known in the art. The sensor is generally present at a concentration of less than about 1 μM, preferably less than about 100 nM, more preferably less than about 10 nM and most preferably less than about 1 nM. The assay mixture also comprises a candidate agent. Suitable candidate agents encompass numerous chemical classes, though typically they are organic compounds; preferably small organic compounds and are obtained from a wide variety of sources including libraries of synthetic or natural compounds. In a particular embodiment, the assay mixture also comprises a known ligand of the receptor. This embodiment is particularly suitable for screening for antagonists of the receptor. A variety of other reagents may also be included in the mixture. These include reagents like salts, buffers, neutral proteins, e.g. albumin, detergents, protease inhibitors, etc. may be used. The mixture is incubated under conditions whereby, but for the presence of the candidate agent, the sensor binds the receptor with a reference binding affinity. In a particular embodiment, all the components of the mixture, including the receptor, peptide and agent, are in solution. The mixture components can be added in any order that provides for the requisite bindings and incubations may be performed at any temperature which facilitates optimal binding. Incubation periods are likewise selected for optimal binding but also minimized to facilitate rapid, high-throughput screening. After incubation, the agent-biased binding between the sensor and receptor is detected according to the nature of the label, as described above. A difference in the binding in the presence and absence of the agent indicates that the agent modulates a receptor binding function. A difference, as used herein, is statistically significant and preferably represents at least a 50%, more preferably at least a 90% difference. A wide variety of methods may be used to measure binding between the sensor and the receptor, depending on the nature of the sensor and nuclear hormone receptor, whether the assay is performed in solution or partly or fully in solid phase, whether luminescent, radioactive or fluorescent emissions are used, whether the sensor or the receptor of immobilized receptor-sensor complexes is detected, etc. In solid phase embodiments, the measuring step may involve, inter alia, immobilizing the receptor through the sensor or the sensor through the receptor. For example, the sensor is considered to comprise a label, such as a tag or the amino acids of the sensor itself may provide an epitope label. Hence, the receptor may be immobilized through the sensor and the sensor immobilized through the label. The label may be directly coupled to the solid phase by conventional covalent and/or noncovalent linkages, or be coupled indirectly through one or more second receptors, specific for the label, such as sensor epitope specific antibodies, avidin (where the label is biotin), etc. Where the sensor is so immobilized, the measuring step generally comprises detecting the immobilized nuclear hormone receptor, such as with a receptor-specific antibody, as in a conventional ELISA format. Preferred ELISA format assays employ a chemiluminescent or time-resolved fluorescent substrate for convenient readout, especially in high throughput applications. In alternative solid phase embodiments, the sensor and receptor are reversed, i.e. the sensor is immobilized through the nuclear hormone receptor. Similarly, the receptor may be directly immobilized, or coupled through one or more receptor-specific receptors and the immobilized sensor may then be detected directly or indirectly, e.g. in an ELISA-type format. The solid phase assays are particularly useful when a plurality of different sequence sensors are sought to be screened simultaneously or in parallel, in panels or mixtures. For example, with orphan receptors, weakly binding peptides are identified in phage display binding assays. Mixtures of weakly binding peptides are used to screen libraries for compounds which modulate peptide binding, and positive mixtures are then separated and assayed by individual peptides. Such active peptides are then directly labeled, e.g. with a fluorescent moiety, for use, e.g. in extremely high throughput solution phase assays, such as the fluorescent polarization assay described below. Panels of such peptides may also be used to screen candidate modulators of known receptors, providing a series of binding effects which constitute a virtual fingerprint of the activity/specificity of a given modulator. In addition, such peptides may be used to identify preferred controls for solution phase assays which require a directly detectable sensor peptide. The invention also provides reagents for use in the subject methods. For example, the invention provides sensors consisting of, or consisting essentially of, a peptide comprising the sequence L,X 1 X 2 L 2 L 3 covalently coupled to a detectable label, wherein L,-L 3 are independently selected from hydrophobic amino acids and X,-X 2 are independently selected from any amino acid and wherein the peptide provides direct, in vitro ligand-dependent binding to a nuclear hormone receptor. In a particular embodiment, the label is a fluorescent label coupled to the N-terminus of the peptide and the peptide is 24, preferably 18, more preferably 12, most preferably 8 or fewer residues in length. The invention also provides reagent mixtures, such as a mixture consisting essentially of nuclear hormone receptor, a peptide and a candidate agent, wherein the peptide provides direct, in vitro ligand-dependent binding to the receptor, preferably wherein the binding is enhanced in the presence of the agent. The following example is offered by way of illustration and not by way of limitation. EXAMPLES I. High-Throughput In Vitro Fluorescence Polarization Assay Reagents: Sensor: Rhodamine-labeled L 1 X,X 2 L 2 L 3 peptide (final cone. = 1 - 5 nM) Receptor: Glutathione-S-transferase/nuclear hormone receptor ligand binding domain fusion protein (final cone. = 100 - 200 nM) Buffer: 10 mM HEPES, 10 mM NaCl, 6 mM magnesium chloride, pH 7.6 Protocol: 1. Add 90 microliters of peptide/NHR mixture to each well of a 96-well microtiter plate. 2. Add 10 microliters of test compound per well. 3. Shake 5 min and within 5 minutes determine amount of fluorescence polarization by using a Fluorolite FPM-2 Fluorescence Polarization Microtiter System (Dynatech Laboratories, Inc). II. Conformational Sensor - ELISA Format Assay Buffer and Solution Preparation: 1. 10X Assay Buffer: lOOmL of 1M Hepes 300mL of 5M NaCl 20mL of 1M MgCl Add MQ H2O to IL 2. Master Mix of Ligand / peptide / protein Protein: final cone = 100 nM Biotin - peptide (MW: 1366.7387g/mole): final cone = 1 uM Add Assay Buffer and H2O to bring to final volume: final buffer cone = IX 3. Antibody Mix: anti-GST, rabbit (final cone. = 1: 10,000) anti-rabbit-HRP (final cone. = 1: 10,000) Add T-TBS to bring to final volume: final buffer cone = IX Procedure: 1. Make 50 mL of Master Mix (see 2 above) of appropriate peptide / protein combinations (use 50 mL polypropylene tubes). Incubate for 1 hr at RT 2. Add 95 uL of Master Mix to each well of a 96-well plate** ** Reacti-Bind Streptavidin-Coated, White Polystyrene Plates (#15118B), which have been blocked by Super-Blocking Reagent from Pierce. 3. Transfer 5 uL of each test compound (stock = 60 uM) to each well of the plate 4. Incubate plate for lhr at RT 5. While incubating, make rabbit anti-GST antibody and anti-rabbit- HRP Antibody Mix (see 3 above). Incubate on ice for 1 hr. 6. Wash plates 3X with H2O thoroughly 7. Add 100 uL of Antibody Mix into each well of the plate 8. Incubate for 1 hr at RT 9. Wash 3X with H2O 10. Dilute Supersignal substrate (mixed Luminol and peroxide) in 1:2 H2O and then add 100 uL into each well 11. Shake 3-5 min. Read chemiluminescence. All publications and patent applications cited in this specification are herein incorporated by reference as if each individual publication or patent application were specifically and individually indicated to be incorporated by reference. Although the foregoing invention has been described in some detail by way of illustration and example for purposes of clarity of understanding, it will be readily apparent to those of ordinary skill in the art in light of the teachings of this invention that certain changes and modifications may be made thereto without departing from the spirit or scope of the appended claims. SEQUENCE LISTING <110> Lustig, Kevin Baeuerle, Patrick Beckmann, Holger Chen, Jin-Long Shan, Bei <120> Nuclear Hormone Receptor Drug Screens <130> T97-012-1 <140> <141> <150> 08/975, 614 <151> 1997-11-21 <160> 18 <170> Patentln Ver. 2.0 <210> 1 <211> 9 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 1 Lys Leu Val Gin Leu Leu Thr Thr Thr 1 5 <210> 2 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 2 lie Leu His Arg Leu Leu Gin Glu 1 5 <210> 3 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 3 Leu Leu Arg Tyr Leu Leu Asp Lys 1 5 <210> 4 <211> 7 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 4 Leu Leu Arg Tyr Leu Leu Asp 1 5 <210> 5 <211> 6 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 5 Leu Arg Tyr Leu Leu Asp 1 5 <210> 6 <211> 6 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 6 Leu Leu Arg Tyr Leu Leu 1 5 <210> 7 <211> 5 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 7 Leu Arg Tyr Leu Leu 1 5 <210> 8 <211> 9 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 8 Leu Leu Arg Tyr Leu Leu Asp Lys Asp 1 5 <210> 9 <211> 10 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 9 Gin Leu Leu Arg Tyr Leu Leu Asp Lys Asp 1 5 10 <210> 10 <211> 11 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 10 His Gin Leu Leu Arg Tyr Leu Leu Asp Lys Asp 1 5 10 <210> 11 <211> 14 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 11 Pro Gin Ala Gin Gin Lys Ser Leu Leu Gin Gin Leu Leu Thr 1 5 10 <210> 12 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 12 Leu Leu Gin Gin Leu Leu Thr Glu 1 5 <210> 13 <211> 9 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 13 Val Thr Leu Leu Gin Leu Leu Leu Gly 1 5 <210> 14 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 14 lie Leu Arg Lys Leu Leu Gin Glu 1 5 <210> 15 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 15 lie Leu Lys Arg Leu Leu Gin Glu 1 5 <210> 16 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 16 lie Leu Arg Arg Leu Leu Gin Glu 1 5 <210> 17 <211> 8 <212> PRT <213> Artificial Sequence <220> <223> Description of Artificial Sequence: NHR Sensor Peptides <400> 17 lie Leu Lys Lys Leu Leu Gin Glu 1 5 <210> 18 <211> 5 <212> PRT <213> Artificial Sequence <220> <221> DOMAIN <222> (1) .. (5) <223> Description of Artificial Sequence: NHR Sensor Peptides; first, fourth and fifth residue are independently selected from hydrophobic amino acids; second and third residues are independently selected from any amino acid. <400> 18 Xaa Xaa Xaa Xaa Xaa 1 5

Claims: WHAT IS CLAIMED IS: 1. An in vitro assay for modulators of a nuclear hormone receptor function, comprising steps: forming a mixture comprising a first nuclear hormone receptor, a peptide sensor and a candidate agent, but not a natural coactivator protein of the first receptor, wherein the sensor provides direct, assay detectable binding to the first receptor under assay conditions measuring an agent-biased binding of the sensor to the first receptor; comparing the agent-biased binding with a corresponding unbiased binding of the sensor to the first receptor; wherein a difference between the biased and unbiased bindings indicates that the agent modulates a function of the first receptor. 2. A method according to claim 1, wherein the first receptor comprises the ligand binding domain of PPARγ, Cyp7PBP(LRH-l), NURRl, RZRβ, RORα, NOR-1, Rev-ErbAβ, Tlx, NGFI-Bβ, HZF-2α, COUP-TFα, β, γ, Nur77, LXRα, COR, Rev-ErbAα, HNF4α, TOR, MB67α, SHP, FXR, SF-1, LXRβ, GCNF, TR2-1 lα,β, TR4, ERRα,β and DAX-1 3. A method according to claim 1, wherein the agent effects an increase in binding of the sensor to the first receptor. 4. A method according to claim 1, wherein the sensor is at a concentration of less than about 10 nM. 5. A method according to claim 1, wherein the sensor comprises an amphipathic alpha helix. 6. A method according to claim 1, wherein the sensor comprises the sequence L 1 X 1 X 2 L 2 L 3 , wherein are independently selected from hydrophobic amino acids and X,- X 2 are independently selected from any amino acid. 7. A method according to claim 1, wherein the sensor comprises a peptide sequence selected from KLVQLLTTT (SEQ ID NO:l), ILHRLLQE (SEQ ID NO:2), LLRYLLDK (SEQ ID NO:3), LLRYLLD (SEQ ID NO:4), LRYLLD (SEQ ID NO:5), LLRYLL (SEQ ID NO:6), LRYLL (SEQ ID NO:7), LLRYLLDKD (SEQ ID NO:8), QLLRYLLDKD (SEQ ID NO:9), HQLLRYLLDKD (SEQ ID NO: 10), PQAQQKSLLQQLLT (SEQ ID NO: 11), LLQQLLTE (SEQ ID NO: 12), VTLLQLLLG (SEQ ID NO: 13), ILRKLLQE (SEQ ID NO: 14, ILKRLLQE (SEQ ID NO: 15), ILRRLLQE (SEQ ID NO: 16) and ILKKLLQE (SEQ ID NO: 17). 8. A method according to claim 1, wherein the first receptor, peptide and agent are in solution. 9. A method according to claim 1, wherein the peptide comprises a fluorescent label and the measuring step comprises detecting fluorescence polarization of the label. 10. A method according to claim 1, wherein the mixture further comprises a ligand of the first receptor. 11. A method according to claim 1, wherein the sensor provides direct, assay detectable, ligand dependent binding to the first receptor under assay conditions. 12. A mixture consisting essentially of a nuclear hormone receptor, a candidate agent and a peptide comprising the sequence L^X^L j covalently coupled to a detectable label, wherein L r L 3 are independently selected from hydrophobic amino acids and X;-X 2 are independently selected from any amino acid and wherein the peptide provides direct, in vitro ligand-dependent binding to the receptor. 13. The mixture of claim 12, in which the binding is enhanced in the presence of the agent. 14. A mixture consisting essentially of a nuclear hormone receptor, a ligand of the receptor, a candidate agent, and a peptide comprising the sequence L,X,X 2 L 2 L 3 covalently coupled to a detectable label, wherein L r L 3 are independently selected from hydrophobic amino acids and X ) -X 2 are independently selected from any amino acid and wherein the peptide provides direct, in vitro ligand-dependent binding to a nuclear hormone receptor. 15. A sensor consisting essentially of a peptide comprising the sequence L 1 X,X 2 L 2 L 3 covalently coupled to a detectable label, wherein L,-L 3 are independently selected from hydrophobic amino acids and XrX 2 are independently selected from any amino acid and wherein the peptide provides direct, in vitro ligand-dependent binding to a nuclear hormone receptor. 16. A sensor according to claim 15, wherein the label is a fluorescent label coupled to the N-terminus of the peptide and the peptide is 12 or fewer residues in length. 17. A method according to claim 1, wherein the measuring step comprises detecting the sensor of immobilized first receptor-sensor complexes. 18. A method according to claim 1, wherein the measuring step comprises detecting the receptor of immobilized first receptor-sensor complexes. 19. A method according to claim 1, wherein the measuring step, the first receptor is immobilized through the sensor. 20. A method according to claim 1, wherein the sensor comprises a label and wherein the measuring step, the first receptor is immobilized through the sensor and the sensor is immobilized through the label. 21. A method according to claim 1, wherein the sensor comprises a label and wherein the measuring step, the first receptor is immobilized through the sensor, and the sensor is immobilized through the label by a second receptor. 22. A method according to claim 1, wherein the sensor comprises a label and wherein the measuring step, the first receptor is immobilized through the sensor, and the sensor is immobilized through the label by a second receptor and wherein the measuring step comprises detecting the immobilized first receptor. 23. A method according to claim 1, wherein the sensor comprises a label and wherein the measuring step, the first receptor is immobilized through the sensor, and the sensor is immobilized through the label by a second receptor and wherein the measuring step comprises detecting the immobilized first receptor with a third receptor. 24. A method according to claim 1, wherein the sensor comprises an epitope label, wherein the measuring step, the first receptor is immobilized through the sensor and the sensor is immobilized through the label by a second receptor comprising an immobilized epitope label-specific antibody moiety. 25. A method according to claim 1, wherein the sensor comprises a biotin label and wherein the measuring step, the first receptor is immobilized through the sensor and the sensor is immobilized through the label by a second receptor comprising an immobilized avidin moiety. 26. A method according to claim 1, wherein the measuring step, the sensor is immobilized through the first receptor. 27. A method according to claim 1, wherein the measuring step, the sensor is immobilized through the first receptor and the first receptor is immobilized through a second receptor. 28. A method according to claim 1, wherein the measuring step, the sensor is immobilized through the first receptor and the first receptor is immobilized through a second receptor and wherein the measuring step comprises detecting the immobilized sensor. 29. A method according to claim 1, wherein the measuring step, the sensor is immobilized through the first receptor and the first receptor is immobilized through a second receptor and wherein the measuring step comprises detecting the immobilized sensor with a third receptor. 30. A method according to claim 1, wherein the measuring step, the sensor is immobilized through the first receptor and the first receptor is immobilized through a second receptor comprising a receptor specific antibody.

Inventors: BAEUERLE PATRICK, BECKMANN HOLGER, CHEN JIN-LONG, LUSTIG KEVIN, SHAN BEI, BAEUERLE, PATRICK, BECKMANN, HOLGER, CHEN, JIN-LONG, LUSTIG, KEVIN, SHAN, BEI
Applicants: TULARIK INC, TULARIK INC.
Application year: 1998
Main classification: G01N33
IPC codes: G01N33