Enzyme architecture: Optimization of transition state stabilization from a cation-phosphodianion pair

Journal of the American Chemical Society

Volumn 137, Issue 16, 2015, Pages 5312-5315

  Reyes, Archie C ^a   Koudelka, Astrid P ^a   Amyes, Tina L ^a   Richard, John P ^a  

^a UNIVERSITY AT BUFFALO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; CATALYSIS; CHAINS; ENZYMES; STABILIZATION;

CATALYTIC MOTIF; CATALYZED REACTIONS; COVALENT ATTACHMENT; DIHYDROXYACETONE PHOSPHATE; SIDE-CHAINS; STABILIZING INTERACTIONS; TRANSITION STATE; TRANSITION STATE STABILIZATION;

POSITIVE IONS;

ANION; CATION; DIHYDROXYACETONE PHOSPHATE; ENZYME; GLYCEROL 3 PHOSPHATE DEHYDROGENASE; GUANIDINE; ION; PHOSPHODIANION; TENIDAP; UNCLASSIFIED DRUG; NICOTINAMIDE ADENINE DINUCLEOTIDE; OROTIDINE 5' PHOSPHATE DECARBOXYLASE;

ARTICLE; ENERGY; HUMAN; HUMAN TISSUE; MUTATION; STATIC ELECTRICITY; CHEMISTRY; ENZYME ACTIVATION; ENZYME STABILITY; ENZYMOLOGY; ESCHERICHIA COLI; GENETICS; KINETICS; METABOLISM; MOLECULAR MODEL; POINT MUTATION; PROTEIN CONFORMATION; THERMODYNAMICS;

DIHYDROXYACETONE PHOSPHATE; ENZYME ACTIVATION; ENZYME STABILITY; ESCHERICHIA COLI; GLYCEROLPHOSPHATE DEHYDROGENASE; HUMANS; IONS; KINETICS; MODELS, MOLECULAR; NAD; OROTIDINE-5'-PHOSPHATE DECARBOXYLASE; POINT MUTATION; PROTEIN CONFORMATION; THERMODYNAMICS;

EID: 84928779132     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/jacs.5b02202     Document Type: Article

References (34)

1. Amyes, T. L.; O'Donoghue, A. C.; Richard, J. P. J. Am. Chem. Soc. 2001, 123, 11325-11326
2. Amyes, T. L.; Richard, J. P.; Tait, J. J. J. Am. Chem. Soc. 2005, 127, 15708-15709
3. Tsang, W.-Y.; Amyes, T. L.; Richard, J. P. Biochemistry 2008, 47, 4575-4582
4. Joseph, D.; Petsko, G.; Karplus, M. Science 1990, 249, 1425-1428
5. Miller, B. G.; Hassell, A. M.; Wolfenden, R.; Milburn, M. V.; Short, S. A. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 2011-2016
6. Ou, X.; Ji, C.; Han, X.; Zhao, X.; Li, X.; Mao, Y.; Wong, L.-L.; Bartlam, M.; Rao, Z. J. Mol. Biol. 2006, 357, 858-869
7. Richard, J. P.; Amyes, T. L.; Goryanova, B.; Zhai, X. Curr. Opin. Chem. Biol. 2014, 21, 1-10
8. Amyes, T. L.; Richard, J. P. Biochemistry 2013, 52, 2021-2035
9. Richard, J. P. Biochemistry 2012, 51, 2652-2661
10. Goldman, L. M.; Amyes, T. L.; Goryanova, B.; Gerlt, J. A.; Richard, J. P. J. Am. Chem. Soc. 2014, 136, 10156-10165
11. Barnett, S. A.; Amyes, T. L.; McKay Wood, B.; Gerlt, J. A.; Richard, J. P. Biochemistry 2010, 49, 824-826
12. Reyes, A. C.; Zhai, X.; Morgan, K. T.; Reinhardt, C. J.; Amyes, T. L.; Richard, J. P. J. Am. Chem. Soc. 2015, 137, 1372-1382
13. Bentley, P.; Dickinson, F. M. Biochem. J. 1974, 143, 19-27
14. Toney, M. D.; Kirsch, J. F. Protein Sci. 1992, 1, 107-119
15. Toney, M. D.; Kirsch, J. F. Science 1989, 243, 1485-1488
16. Go, M. K.; Amyes, T. L.; Richard, J. P. J. Am. Chem. Soc. 2010, 132, 13525-13532
17. Olucha, J.; Meneely, K. M.; Lamb, A. L. Biochemistry 2012, 51, 7525-7532
18. Kirby, A. J. Adv. Phys. Org. Chem. 1980, 17, 183-278
19. Jencks, W. P. Proc. Natl. Acad. Sci. U.S.A. 1981, 78, 4046-4050
20. Amyes, T. L.; Ming, S. A.; Goldman, L. M.; Wood, B. M.; Desai, B. J.; Gerlt, J. A.; Richard, J. P. Biochemistry 2012, 51, 4630-4632
21. Go, M. K.; Amyes, T. L.; Richard, J. P. Biochemistry 2009, 48, 5769-5778
22. Amyes, T. L.; Richard, J. P. Biochemistry 2007, 46, 5841-5854
23. Lodi, P. J.; Chang, L. C.; Knowles, J. R.; Komives, E. A. Biochemistry 1994, 33, 2809-2814
24. Go, M. K.; Koudelka, A.; Amyes, T. L.; Richard, J. P. Biochemistry 2010, 49, 5377-5389
25. Jin, Y.; Bhattasali, D.; Pellegrini, E.; Forget, S. M.; Baxter, N. J.; Cliff, M. J.; Bowler, M. W.; Jakeman, D. L.; Blackburn, G. M.; Waltho, J. P. Proc. Natl. Acad. Sci. U.S.A. 2014, 111, 12384-12389
26. Ray, W. J., Jr.; Long, J. W. Biochemistry 1976, 15, 3993-4006
27. Schwans, J. P.; Sunden, F.; Gonzalez, A.; Tsai, Y.; Herschlag, D. Biochemistry 2013, 52, 7840-7855
28. Fried, S. D.; Bagchi, S.; Boxer, S. G. Science 2014, 346, 1510-1514
29. Richard, J. P.; Amyes, T. L. Bioorg. Chem. 2004, 32, 354-366
30. Richard, J. P. Biochemistry 1998, 37, 4305-4309
31. Springs, B.; Haake, P. Bioorg. Chem. 1977, 6, 181-190
32. Malabanan, M. M.; Amyes, T. L.; Richard, J. P. Curr. Opin. Struct. Biol. 2010, 20, 702-710
33. Malabanan, M. M.; Nitsch-Velasquez, L.; Amyes, T. L.; Richard, J. P. J. Am. Chem. Soc. 2013, 135, 5978-5981
34. Zanghellini, A. Curr. Opin. Biotechnol. 2014, 29, 132-138