Kinetic measurements of binding interaction with curvature evaluation

• US 20080033705A1
• Filed: 08/07/2006
• Published: 02/07/2008
• Est. Priority Date: 08/07/2006
• Status: Abandoned Application

• Current Assignee: Agilent Technologies, Inc.
• Original Assignee: Agilent Technologies, Inc.
• Inventors: Wilson, William Henry, Bynum, Magdalena
• Application Number:
  US11/500,190
• Publication Number:
  US 20080033705A1
• Time in Patent Office: Days
• US Class Current: 703/11
• CPC Class Codes: G01N 21/553 and using surface plasmons fluorescence excitation G01N21/648; enhanced Raman G01N21/658

Abstract

Data from kinetic surface plasmon resonance measurements are fitted to time-profile curves. Time profile curves with sub-threshold curvature are flagged as being insufficient to provide reliable determinations of kinetic parameters and binding affinity. The remaining curves are used to calculate the kinetic parameters and binding affinity, obviating the need for multiple runs for these purposes. The resulting increase in throughput enables drug discovery methods in which kinetic measurements are performed earlier in the screening processes, e.g., so that all or most primary-screen hits can be subjected to data-rich kinetic measurements for screening purposes.

Claims

1. A method comprising:

tracking the kinetics of a binding reaction to yield kinetics data;

fitting a time-profile curve to said kinetics data, said time-profile curve being characterized at least in part by a curvature-related value; and

evaluating the validity of said time-profile curve as a representative of said kinetics at least in part as a function of said curvature-related value.

2. A method as recited in claim 1 wherein said time-profile curve includes an exponential curve having an exponential constant, said curvature-related value being at least in part a function of said exponential constant.

3. A method as recited in claim 2 wherein said parameter related value is said exponential constant.

4. A method as recited in claim 1 wherein said time-profile curve includes an exponential curve of association having an exponential constant of association and an exponential constant of dissociation.

5. A method as recited in claim 4 wherein said parameter-related value is an exponential constant for an observed rate of association.

6. A method as recited in claim 5 wherein said evaluating yields a validity indication.

7. A method as recited in claim 6 further comprising determining an affinity for said binding only if said validity indication indicates that said time-profile curve is a valid representative of said kinetics.

8. A method as recited in claim 1 wherein said binding reaction is between a surface-bound interactant and a mobile interactant that is mobile when not bound to said surface-bound interactant.

9. A method as recited in claim 8 wherein said tracking involves the use of a surface plasmon resonance biosensor.

10. A method as recited in claim 8 wherein said surface bound interactant is a protein.

11. A method as recited in claim 1 wherein said tracking, fitting, and evaluating are performed independently for plural pairs of target-candidate interactants as part of a target-based drug discovery process.

12. A method as recited in claim 11 wherein each of said target-candidate binding pairs includes a respective candidate drug in solution and a common target biomolecule bound to a sensor surface.

13. A method as recited in claim 12 wherein said tracking is preceded by a primary screening of a library of candidate drugs, said screening yielding a number of hits, at least most of said hits being included in respective ones of said pairs of target-candidate interactants.

14. A method as recited in claim 13 wherein method involves testing the drug candidates of some of said drug-candidate binding pairs for interaction with at least one non-target biomolecule after the respective evaluating has been completed.

15. A method as recited in claim 12 wherein method involves testing the drug candidates of some of said drug-candidate binding pairs for interaction with at least one non-target biomolecule after the respective evaluating has been completed.

16. A method as recited in claim 15 wherein a drug candidate is tested for interaction with said non-target biomolecule only if the respective curvature-related value meets a predetermined criterion.

17. A system comprising:

a sensor for monitoring the kinetics of a binding reaction to yield kinetics values; and

a computer including software for gathering said kinetics values to yield a binding-versus-time profile, fitting a time-profile curve to said profile, determining a curvature-related value for said time-profile curve, and evaluating the validity of said time-profile curve as representative of said binding reaction at least in part as a function of said curvature-related value.

18. A system as recited in claim 17 wherein said time-profile curve includes one or more exponential curves and said curvature-related value is a function of one or more exponential constants.

19. A system as recited in claim 17 wherein said curvature related value is an exponential constant for an observed rate of association.

20. A system as recited in claim 17 wherein said sensor is a surface plasmon resonance biosensor.