Binding compounds and methods for identifying binding compounds
First Claim
Patent Images
1. A method of identifying a binding compound for CXC chemokine receptor 4 comprising the steps of:
- a) providing a library of two or more molecules;
b) providing a molecule having a binding property corresponding to CXC chemokine receptor 4;
c) binding a molecule from said library of two or more molecules to said molecule having a binding property corresponding to CXC chemokine receptor 4;
d) separating said bound molecule from said library of two or more molecules; and
e) identifying said bound molecule as a binding compound for CXC chemokine receptor 4.
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Abstract
Binding compounds for CXC chemokine receptor 4 and methods for identifying binding compounds for CXC chemokine receptor 4 are provided. Also provided are therapeutic agents comprising such compounds.
6 Citations
45 Claims
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1. A method of identifying a binding compound for CXC chemokine receptor 4 comprising the steps of:
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a) providing a library of two or more molecules;
b) providing a molecule having a binding property corresponding to CXC chemokine receptor 4;
c) binding a molecule from said library of two or more molecules to said molecule having a binding property corresponding to CXC chemokine receptor 4;
d) separating said bound molecule from said library of two or more molecules; and
e) identifying said bound molecule as a binding compound for CXC chemokine receptor 4. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 19, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45)
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15. A computer-aided method for identifying relative binding affinity of a test molecule to CXC chemokine receptor 4, comprising the steps of:
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a) entering input data characterizing CXC chemokine receptor 4 into a computer program;
b) entering input data characterizing at least one test peptide-like molecule, each of known sequence but unknown binding affinity;
c) analyzing each applied test peptide-like molecule using the computer program to generate a prediction of a relative binding affinity for each test peptide-like molecule, and outputting such prediction.
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16. A method for determining an amino acid sequence motif for an interaction site of a binding compound for CXC chemokine receptor 4, comprising the steps of:
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a) contacting a peptide library with a molecule having a binding property corresponding to CXC chemokine receptor 4 under conditions which allow for interaction between said molecule having a binding property corresponding to CXC chemokine receptor 4 and said peptide library;
b) allowing said molecule having a binding property corresponding to CXC chemokine receptor 4 to interact with said peptide library such that a complex is formed between said molecule having a binding property corresponding to CXC chemokine receptor 4 and a subpopulation of library members capable of interacting with said molecule having a binding property corresponding to CXC chemokine receptor 4;
c) separating said subpopulation of library members capable of interacting with said molecule having a binding property corresponding to CXC chemokine receptor 4 from library members that are incapable of interacting with said molecule having a binding property corresponding to CXC chemokine receptor 4;
d) determining a relative abundance of different amino acid residues at each degenerate position within said subpopulation of library members; and
e) determining an amino acid sequence motif for an interaction site of said molecule having a binding property corresponding to CXC chemokine receptor 4, based upon said relative abundance of different amino acid residues at each degenerate position within the library members. - View Dependent Claims (17, 18, 20, 21, 22, 23, 24, 25, 26)
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27. A library comprising members based upon an amino acid sequence motif for an interaction site of a binding compound for CXC chemokine receptor 4, the motif being determined by permitting at least one peptide member from a peptide library to interact with said binding compound for CXC chemokine receptor 4, and determining an amino acid sequence of at least one peptide that interacts with said binding compound for CXC chemokine receptor 4.
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28. A method of solubilizing or immobilizing a compound corresponding to the binding property of CXC chemokine receptor 4, wherein the solubilization or immobilization is conducted substantially in the absence of sodium chloride when determining a compound corresponding to the binding of CXC chemokine receptor 4.
- 29. A method of solubilizing or immobilizing a compound corresponding to the binding property of CXC chemokine receptor 4, wherein the solubilization or immobilization is conducted by a using a low salt concentration when determining a compound corresponding to the binding of CXC chemokine receptor 4.
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31. A CXC chemokine 4 transfer vector comprising a CXC chemokine receptor 4 molecule and a tag selected from the group consisting of GST, FLAG, 6×
- His, C-MYC, MBP, V5, Xpress, CBP, and HA.
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32. A method of using a three-dimensional structure of CXC chemokine receptor 4 in a drug screening assay comprising:
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a) selecting a potential drug by performing rational drug design with the three-dimensional structure, wherein said selecting step is performed in conjunction with computer modeling;
b) contacting the potential drug with a first molecule comprising a first CXC chemokine receptor 4; and
c) detecting the binding of the potential drug with said first molecule;
wherein a potential drug is selected as a drug if the potential drug binds to said first molecule. - View Dependent Claims (33, 34)
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Specification