Kinetic studies of small molecule interactions with protein kinases using biosensor technology

Analytical Biochemistry

Volumn 340, Issue 2, 2005, Pages 359-368

  Nordin, Helena ^a   Jungnelius, Maria ^a   Karlsson, Robert ^a   Karlsson, Olof P ^a  

^a BIACORE AB   (Sweden)

Author keywords

Binding rate constants; Biosensor; Drug discovery; Methodology; Protein kinase inhibitors; Surface plasmon resonance

Indexed keywords

AMINO ACIDS; BIOSENSORS; ENZYME INHIBITION; KINETICS; MOLECULES; PLASMONS; RATE CONSTANTS;

BINDING RATE CONSTANTS; DRUG DISCOVERY; GENERAL METHODOLOGIES; IMMOBILIZATION CONDITIONS; INTERACTION STUDIES; METHODOLOGY; PROTEIN KINASE INHIBITORS; SMALL-MOLECULE BINDINGS;

SURFACE PLASMON RESONANCE;

2,3 DIHYDRO 2 OXO 3 (4,5,6,7 TETRAHYDRO 1H INDOL 2 YLMETHYLENE) 1H INDOLE 5 SULFONIC ACID DIMETHYLAMIDE; 4 (4 FLUOROPHENYL) 2 (4 HYDROXYPHENYL) 5 (4 PYRIDYL)IMIDAZOLE; 4 (4 FLUOROPHENYL) 2 (4 METHYLSULFINYLPHENYL) 5 (4 PYRIDYL)IMIDAZOLE; 4 (4 FLUOROPHENYL) 2 (4 NITROPHENYL) 5 (4 PYRIDYL)IMIDAZOLE; 5 IODOTUBERCIDIN; BUFFER; ENZYME INHIBITOR; HYPERICIN; PHOSPHOTRANSFERASE; PROTEIN KINASE; PROTEIN SERINE THREONINE KINASE; PROTEIN TYROSINE KINASE; UNCLASSIFIED DRUG;

ARTICLE; BINDING AFFINITY; BIOSENSOR; COMPETITIVE INHIBITION; DISSOCIATION; ENZYME ACTIVITY; ENZYME ASSAY; ENZYME BINDING; ENZYME IMMOBILIZATION; ENZYME INHIBITION; INHIBITION KINETICS; KINETICS; METHODOLOGY; MOLECULAR INTERACTION; MOLECULAR SIZE; MOLECULE; PRIORITY JOURNAL; PROTEIN INTERACTION; TECHNOLOGY;

EID: 17444407490     PISSN: 00032697     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ab.2005.02.027     Document Type: Article

References (25)

1. S.P. Davies, H. Reddy, M. Caivano, and P. Cohen Specificity and mechanism of action of some commonly used protein kinase inhibitors Biochem. J. 351 2000 95 105
2. P. Cohen The development and therapeutic potential of protein kinase inhibitors Curr. Opin. Chem. Biol. 3 1999 459 465
3. S.G. Buchanan Protein structure: discovering selective protein kinase inhibitors Targets 2 2003 101 108
4. S. Kumar, J. Boehm, and J.C. Lee p38 MAP kinases: key signaling molecules as therapeutic targets for inflammatory diseases Nat. Rev. Drug Discov. 2 2003 717 726
5. D.G. Myszka, and R.L. Rich Implementing surface plasmon resonance biosensors in drug discovery Pharm. Sci. Technol. Today 3 2000 310 317
6. R. Karlsson, and A. Fält Experimental design for kinetic analysis of protein-protein interactions with surface plasmon resonance biosensors J. Immunol. Methods 200 1997 121 133
7. P.-O. Markgren, M. Hämäläinen, and U.H. Danielson Kinetic analysis of the interaction between HIV-1 protease and inhibitors using optical biosensor technology Anal. Biochem. 279 2000 71 78
8. M.D. Hämeläinen, P.-O. Markgren, W. Schaal, A. Karlén, B. Classon, L. Vrang, B. Samuelsson, A. Hallberg, and U.H. Danielson Characterization of a set of HIV-1 protease inhibitors using binding kinetics data from a biosensor-based screen J. Biomol. Screen. 5 2000 353 359
9. P.-O. Markgren, M.T. Lindgren, K. Gertow, R. Karlsson, M.D. Hämeläinen, and U.H. Danielson Determination of interaction kinetic constants for HIV-1 protease inhibitors using optical biosensor technology Anal. Biochem. 291 2001 207 218
10. R.L. Thurmond, S.A. Wadsworth, P.H. Schafer, R.A. Zivin, and J.J. Siekierka Kinetics of small molecule inhibitor binding to p38 kinase Eur. J. Biochem. 268 2001 5747 5754
11. D. Casper, M. Bukhtiyarova, and E.B. Springman A Biacore biosensor method for detailed kinetic binding analysis of small molecule inhibitors of p38alpha mitogen-activated protein kinase Anal. Biochem. 325 2004 126 136
12. Å. Frostell-Karlsson, A. Remaeus, H. Roos, K. Andersson, P. Borg, M. Hämäläinen, and R. Karlsson Biosensor analysis of the interaction between immobilized human serum albumin and drug compounds for prediction of human serum albumin binding levels J. Med. Chem. 43 2000 1986 1992
13. B. Johnsson, S. Löfås, and G. Lindquist Immobilization of proteins to a carboxymethyldextran modified gold surface for biospecific interaction analysis in surface plasmon resonance Anal. Biochem. 198 1991 268 277
14. D.W. Chan, S.-C. Son, W. Block, R. Ye, K.K. Khanna, M.S. Wold, P. Douglas, A.A. Goodarzi, J. Pelley, Y. Taya, M.F. Lavin, and S.P. Lees-Miller Purification and characterization of ATM from human placenta J. Biol. Chem. 275 2000 7803 7810
15. G. Tian, L.S. Kane, W.D. Holmes, and S.T. Davis Modulation of cyclin-dependent kinase 4 by binding of magnesium(II) and manganese(II) Biophys. Chem. 95 2002 79 90
16. P.O. Markgren, W. Schaal, M. Hämäläinen, A. Karlén, A. Hallberg, B. Samuelsson, and U.H. Danielson Relationships between structure and interaction kinetics for HIV-1 protease inhibitors J. Med. Chem. 45 2002 5430 5439
17. B. Frantz, T. Klatt, M. Pang, J. Parsons, A. Rolando, H. Williams, M.J. Tocci, S.J. O'Keefe, and E.A. O'Neill The activation state of p38 mitogen-activated protein kinase determines the efficiency of ATP competition for pyridinylimidazole inhibitor binding Biochemistry 37 1998 13846 13853
18. L. Tong, S. Pav, D.M. White, S. Rogers, K.M. Crane, C.L. Cywin, M.L. Brown, and C.A. Pargellis A highly specific inhibitor of human p38 MAP kinase binds in the ATP pocket Nat. Struct. Biol. 4 1997 311 316
19. P.K. Nielsen, B.C. Bonsager, C.R. Berland, B.W. Sigurskjold, and B. Svensson Kinetics and energetics of the binding between barley α-amylase/subtilisin inhibitor and barley α-amylase 2 analyzed by surface plasmon resonance and isothermal titration colorimetry Biochemistry 42 2003 1478 1487
20. E.A. Bayer, and M. Wilchek Protein biotinylation Methods Enzymol. 184 1990 138 160
21. R.Y. Lue, G.Y. Chen, Y. Hu, Q. Zhu, and S.Q. Yao Versatile protein biotinylation strategies for potential high-throughput proteomics J. Am. Chem. Soc. 126 2004 1055 1062
22. C.E. Bohl, C. Chang, M.L. Mohler, J. Chen, D.D. Miller, P.W. Swaan, and J.T. Dalton A ligand-based approach to identify quantitative structure-activity relationships for the androgen receptor J. Med. Chem. 47 2004 3765 3776
23. H. Hong, H. Fang, Q. Xie, R. Perkins, D.M. Sheehan, and W. Tong Comparative molecular field analysis (CoMFA) model using a large diverse set of natural, synthetic, and environmental chemicals for binding to the androgen receptor SAR QSAR Environ. Res. 14 2003 373 388
24. D.F. Lewis, B.G. Lake, M. Dickins, and P.S. Goldfarb Homology modeling of CYP2A6 based on the CYP2C5 crystallographic template: enzyme-substrate interactions and QSARs for binding affinity and inhibition Toxicol. In Vitro 17 2003 179 190
25. C.F. Shuman, M.D. Hämäläinen, and U.H. Danielson Kinetic and thermodynamic characterization of HIV-1 protease inhibitors J. Mol. Recognit. 17 2004 1 14