Replication of non-hydrogen bonded bases by DNA polymerases: A mechanism for steric matching

Biopolymers

Volumn 48, Issue 1, 1998, Pages 3-17

  Kool, Eric T ^a  

^a UNIVERSITY OF ROCHESTER   (United States)

Author keywords

Derivation; Fidelity; Geometry; Hydrogen bonding; Klenow fragment; Mispairing; Watson Crick pairing

Indexed keywords

CONFORMATIONS; DNA SEQUENCES; HYDROGEN BONDS; WATER;

DESOLVATION; SOLVATION;

ENZYME KINETICS;

DNA BASE; DNA POLYMERASE;

ARTICLE; BASE PAIRING; CHEMICAL REACTION KINETICS; DNA REPLICATION; DNA SYNTHESIS; ENZYME ACTIVE SITE; HYDROGEN BOND; SOLVATION; STEADY STATE; STEREOCHEMISTRY;

DNA REPLICATION; DNA-DIRECTED DNA POLYMERASE; HYDROGEN BONDING; NUCLEIC ACID CONFORMATION; NUCLEOTIDES;

EID: 0031774216     PISSN: 00063525     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0282(1998)48:1<3::AID-BIP2>3.0.CO;2-7     Document Type: Article

References (30)

1. Kornberg, A. & Baker, T. A. (1992) DNA Replication, 2nd ed., W. H. Freeman, New York.
2. Goodman, M. F., Creighton, S., Bloom, L. B. & Petruska, J. (1993) Crit. Rev. Biochem. Mol. Biol. 28, 83-126.
3. Carroll, S. S. & Benkovic, S. J. (1990) Chem. Rev. 90, 1291-1307.
4. Donlin, M. J. & Johnson, K. A. (1994) Biochemistry 33, 14908-14917.
5. Johnson, K. A. (1993) Ann. Rev. Biochem. 62, 685-713.
6. Loeb, L. A. & Kunkel, T. A. (1982) Ann. Rev. Biochem. 52, 429-457.
7. Echols, H. & Goodman, M. F. (1991) Ann. Rev. Biochem. 60, 477-511.
8. McClure, W. R. & Jovin, T. M. (1975) J. Biol. Chem. 250, 4073-4080.
9. Fersht, A. R. (1979) Proc. Natl. Acad. Sci. USA 76, 4946-4950.
10. El Deiry, W. S., So, A. G. & Downey, K. M. (1988) Biochemistry 27, 546-553.
11. Joyce, C. M., Sun, X. C. & Grindley, N. D. (1992) J. Biol. Chem. 267, 24485-24500.
12. Kuchta, R. D., Mizrahi, V., Benkovic, P. A., Johnson, K. A. & Benkovic, S. J. (1987) Biochemistry 26, 8410-8417.
13. Kunkel, T. A., Schaaper, R. M., Beckman, R. A. & Loeb, L. A. (1981) J. Biol. Chem. 256, 9883-9889.
14. Creighton, S. & Goodman, M. F. (1995) J. Biol. Chem. 270, 4759-4774.
15. Umar, A. & Kunkel, T. A. (1996) 238, 297-307.
16. Modrich, P. & Lahue, R. (1996) Ann. Rev. Biochem. 65, 101-133.
17. Watson, J. D. & Crick, F. H. C. (1953) Nature 171, 737-738.
18. Watson, J. D., Hopkins, N. H., Roberts, J. W., Steitz, J. A. & Weiner, A. M. (1987) Molecular Biology of the Gene, 4th ed., Benjamin/Cummings, Menlo Park, CA, p. 283.
19. Stryer, L. (1995) Biochemistry, 4th ed, W. H. Freeman, New York, p. 89.
20. Goodman, M. F., Watanabe, S. M. & Branscomb, E. W. (1982) Basic Life Sci. 20, 213-229.
21. Goodman, M. F., Keener, S., Guidotti, S. & Dawcomb, E. W. (1983) J. Biol. Chem. 258, 3469-3475.
22. Aboul-ela, F., Koh, D. & Tinoco, I., Jr. (1985) Nucleic Acids Res. 13, 4811-4825.
23. Werntges, H., Steger, G., Riesner, D. & Fritz, H.-J. (1986) Nucleic Acids Res. 14, 3773-3791.
24. Petruska, J., Goodman, M. F., Boosalis, M. S., Sowers, L. C., Cheong, C. & Tinoco, I., Jr. (1988) Proc. Natl. Acad. Sci. USA 85, 6252-6256.
25. Freeze, E. (1959) J. Mol. Biol. 1, 87-105.
26. Sowers, L. C., Fazakerley, G. V., Eritja, R., Kaplan, B. E. & Goodman, M. F. Proc. Natl. Acad. Sci. USA 83, 5454-5438.
27. Eritja, R., Horowitz, D. M., Walker, P. A., Ziehler-Martin, J. P., Boosalis, M. S., Goodman, M. F. Itakura, K. & Kaplan, B. E. (1986) Nucleic Acids Res. 14, 8135-8153.
28. Strazewski, P. & Tamm, C. (1990) Angew. Chem. Int. Ed. Engl. 29, 36-57.
29. Shibutani, S., Takeshita, M. & Grollman, A. P. (1991) Nature 349, 431-434.
30. Ward, D. C. & Reich, E. (1972) J. Biol. Chem. 247, 705-719.