Hydrolases: The correlation between informational structure and the catalytic sites organization

Journal of Biomolecular Structure and Dynamics

Volumn 25, Issue 5, 2008, Pages 553-561

  Nekrasov, Alexei N ^a   Zinchenko, Alexei A ^a  

^a SHEMYAKIN OVCHINNIKOV INSTITUTE OF BIOORGANIC CHEMISTRY   (Russian Federation)

Author keywords

Enzyme catalytic site; Hydrolases; Information structure of proteins

Indexed keywords

AMINO ACID; CARBOXYPEPTIDASE A; HYDROLASE; PAPAIN; PEPSIN A; RIBONUCLEASE A; TRYPSIN;

AMINO ACID SEQUENCE; ARTICLE; CATALYSIS; CORRELATION ANALYSIS; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME LOCALIZATION; ENZYME STRUCTURE; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FUNCTION;

EID: 40949147045     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.2008.10507202     Document Type: Article

References (22)

1. Nekrasov, A. N., 2004. J Biomol Struct Dyn, 21:615–623.
2. Nekrasov, A. N., 2002. J Biomol Struct Dyn, 20:87–92.
3. Wu, C. H., Yeh, L. S., Huang, H., Arminski, L., Castro-Alvear, J., Chen, Y., Hu, Z., Kourtesis, P., Ledley, R. S., Suzek, B. E., Vinayaka, C. R., Zhang, J., and Barker, W. C., 2003. Nucleic Acids Res, 1:345–347.
4. MEROPS the peptidase database Release 7.50 http://merops.sanger.ac.uk/
5. James, M. N. G., 2004. “ Catalytic pathway of aspartic peptidases ”. In Handbook of Proteolytic Enzimes, 2 Ed. Edited by:Barrett, A. J., Rawlings, N. D., and Woessner, J. F., 12–19. London:Elsevier.
6. Sielecki, A. R., Fedorov, A. A., Boodhoo, A., Andreeva, N. S., and James, M. N., 1990. J Mol Biol, 214:143–170.
7. The Comprehensive Enzyme Information System -BRENDA http://www.brenda.uni-koeln.de/
8. Transue, T. R., Gabel, S. A., and London, R. E., 2006. Bioconjug Chem, 17:300–308.
9. Rawlings, N. D., and Barret, A. J., 2004. “ Introduction:Serine peptidase and their clans ”. In Handbook of Proteolytic Enzimes, 2 Ed. Edited by:Barrett, A. J., Rawlings, N. D., and Woessner, J. F., 1417–1439. London:Elsevier.
10. Neidhart, D. J., and Petsko, G. A., 1988. Protein Eng, 2:271–276.
11. Polgar, L., 2004. “ Catalytic Mechanisms of Cysteine Peptidases ”. In Handbook of Proteolytic Enzimes, 2 Ed. Edited by:Barrett, A. J., Rawlings, N. D., and Woessner, J. F., 1072–1079. London:Elsevier.
12. Yamamoto, D., Matsumoto, K., Ohishi, H., Ishida, T., Inoue, M., Kitamura, K., and Mizuno, H., 1991. J Biol Chem, 266:14771–14777.
13. Auld, D. S., 2004. “ Catalytic Mechanisms of Metallopeptidases ”. In Handbook of Proteolytic Enzimes, 2 Ed. Edited by:Barrett, A. J., Rawlings, N. D., and Woessner, J. F., 268–289. London:Elsevier.
14. Kilshtain-Vardi, A., Glick, M., Greenblatt, H. M., Goldblum, A., and Shoham, G., 2003. Acta Crystallogr, Sect D, 59:323–333.
15. Balakrishnan, R., Ramasubbu, N., Varughese, K. I., and Parthasararhy, R., 1997. Proc Nat Acad Sci. USA, 94:9620–9625.
16. Blackburn, P., and Moore, S., 1982. “ Pancreatic Ribonuclease ”. In The Enzymes Edited by:Boyer, P. D., Vol. 15, 317–433. N.Y.:Acad. press.
17. Fersht, A., 1999. Structure and Mechanism in Protein Science. New York:W. H. Freeman and Company.
18. Finkelstein, A. V., and Ptitsyn, O. B., 2002. Protein Physics. A Course of Lectures. Academic Press.
19. Antonov, V. K., 1993. Chemistry of Proteolysis. Berlin—Heidelberg:Springer-Verlag.
20. 3Dee—Database of Protein Domain Definitions http://www.compbio.dundee.ac.uk/3Dee/search/domains_server.html
21. Jencks, W. P., 1997. Annu Rev Biochem, 66:1–18.
22. Blow, D., 2000. Structure, 8:R77–R81.