Surface plasmon resonance methods

• US 20030186464A1
• Filed: 01/29/2003
• Published: 10/02/2003
• Est. Priority Date: 01/29/2002
• Status: Abandoned Application

• Current Assignee: Sunesis Pharmaceuticals, Inc. (Viracta Therapeutics, Inc.)
• Original Assignee: Sunesis Pharmaceuticals, Inc. (Viracta Therapeutics, Inc.)
• Inventors: Cunningham, Brian, Hyde, Jennifer, Arkin, Michelle
• Application Number:
  US10/354,899
• Publication Number:
  US 20030186464A1
• Time in Patent Office: Days
• US Class Current: 436/518
• CPC Class Codes: G01N 21/553 and using surface plasmons fluorescence excitation G01N21/648; enhanced Raman G01N21/658
• CPC Class Codes: G01N 33/54373 involving physiochemical end-point determination, e.g. wave-guides, FETS, gratings

Abstract

The present invention relates to the use of SPR methods to obtain information relating to molecular binding events. In one aspect of the present invention, methods are provided for determining whether a binding interaction is competitive or cooperative. In another aspect of the present invention, methods are provided for obtaining information where the binding interaction includes a formation of a reversible covalent bond.

Claims

1. A method comprising:

a) measuring by SPR a first extent of interaction between a first ligand and a substrate in the presence of a second ligand, wherein the substrate possesses a first chemically reactive group and the second ligand possesses a second chemically reactive group and the second ligand is capable of forming a reversibly covalent substrate-ligand complex with the substrate, and wherein the first ligand or the substrate is immobilized to a surface,

b) measuring by SPR a second extent of interaction between the first ligand and the substrate in the absence of the second ligand, and

c) comparing the first extent of interaction with the second extent of interaction.

2. The method of claim 1 wherein the first ligand and the second ligand are binding cooperatively to the substrate and the first extent of interaction is greater than the second extent of interaction.

3. The method of claim 1 wherein the first ligand and the second ligand are binding simultaneously to the substrate, and the first extent of interaction is equal to the second extent of interaction.

4. The method of claim 1 wherein the first ligand and the second ligand are binding competitively to the substrate and the first extent of interaction is less than the second extent of interaction.

5. The method of claim 1 wherein the first extent of binding and the second extent of binding are measured in parallel.

6. The method of claim 1 wherein the substrate is a substrate-thiolate, the first chemically reactive group is a first thiol group, the second chemically reactive group is a second thiol group, and wherein the second ligand is capable of forming a substrate-SS—

ligand complex with the substrate-thiolate.

7. The method of claim 6 wherein the first ligand is immobilized to the surface.

8. The method of claim 7 wherein the first ligand is a ligand-thiolate capable of forming an immobilized ligand-SS—

substrate complex with the substrate-thiolate.

9. The method of claim 7 wherein the first extent of binding is measured under conditions where the substrate-SS—

ligand complex has formed.

10. The method of claim 6 wherein the substrate-thiolate is immobilized to the surface.

11. The method of claim 10 wherein the first extent of binding is measured under conditions where an immobilized substrate-SS—

ligand complex between the substrate-thiolate and the second ligand has formed.

13. The method of claim 1 or claim 12 wherein one of the first ligand and second ligand is a peptide and the other is a small molecule of less than 2000 Da.

14. The method of claim 1 or claim 12 wherein the first ligand and the second ligand are each a small molecule of less that 2000 Da.

17. The method of claim 1, 12, or 15 wherein the substrate is a protein.

12. A method comprising:

a) measuring by SPR a first extent of interaction between a first ligand and a substrate-thiolate in the presence of a second ligand, wherein the substrate-thiolate possesses a first thiol group, and the second ligand possesses a second thiol group, and the substrate-thiolate and the second ligand are capable of forming a substrate-SS—

ligand complex, and wherein the first ligand or the substrate-thiolate is immobilized to a surface,

b) measuring by SPR a second extent of interaction between the first ligand and the substrate-thiolate in the absence of the second ligand, and

c) comparing the first extent of interaction with the second extent of interaction.

15. A method comprising:

a) measuring by SPR a calibration corresponding to an extent of formation of a reversible covalent bond between a substrate and a ligand in the presence of a reversing agent at a first concentration wherein the first concentration is sufficient to disrupt the reversible covalent bond and wherein the substrate or the ligand is immobilized,

b) measuring by SPR a plurality of test values wherein each value corresponds to an extent of formation of the reversible covalent bond between the substrate and the ligand at a concentration of a reversing agent that is less than the first concentration, and

c) correlating the extent of formation of the reversible covalent bond as a function of the concentration of the reversing agent.

16. The method of claim 15 wherein the ligand is a small molecule of less than 2000 Da.