Managing peptidases in the genomic era

Biological Chemistry

Volumn 384, Issue 6, 2003, Pages 873-882

  Barrett, Alan J ^a   Tolle, Dominic P ^a   Rawlings, Neil D ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

Classification; Genome; Nomenclature; Peptidase; Protease; Proteinase

Indexed keywords

PEPTIDASE;

AMINO ACID SEQUENCE; CLASSIFICATION; DATA BASE; ENZYME ACTIVITY; GENOMICS; HUMAN; INFORMATION PROCESSING; INFORMATION RETRIEVAL; NOMENCLATURE; NONHUMAN; PRIORITY JOURNAL; REVIEW; SEQUENCE HOMOLOGY;

ANIMALS; DATABASES, PROTEIN; EVOLUTION, MOLECULAR; GENOMICS; HUMANS; INTERNET; PEPTIDE HYDROLASES; TERMINOLOGY;

EID: 0038486746     PISSN: 14316730     EISSN: None     Source Type: Journal    
DOI: 10.1515/BC.2003.098     Document Type: Review

References (20)

1. Allaire, M., Chernaia, M.M., Malcolm, B.A. and James, M.N.G. (1994). Picornaviral 3C cysteine proteinases have a fold similar to chymotrypsin-like serine proteinases. Nature 369, 72-76.
2. Altschul, S.F., Madden, T.L., Schäffer, A.A., Zhang, J.H., Zhang, Z., Miller, W. and Lipman, D.J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
3. Bajaj, M. and Blundell, T. (1984). Evolution and the tertiary structure of proteins. Annu. Rev. Biophys. Bioeng. 13, 453-492.
4. Barrett, A.J. (2001). Proteolytic enzymes: nomenclature and classification. In: Proteolytic Enzymes, Second Edition, A Practical Approach, R.J. Beynon and J.S. Bond, eds. (Oxford, UK: Oxford University Press), Chapter 1, pp. 1-21.
5. Barrett, A.J. and Rawlings, N.D. (1995). Families and clans of serine peptidases. Arch. Biochem. Biophys. 318, 247-250.
6. Barrett, A.J. and Rawlings, N.D. (2001). Evolutionary lines of cysteine peptidases. Biol. Chem. 382, 727-733.
7. Barrett, A.J., Rawlings, N.D., and Woessner, J.F., eds. (1998). Handbook of Proteolytic Enzymes, First Edition (London, UK: Academic Press).
8. Barrett, A.J., Rawlings, N.D., and O'Brien, E.A. (2001). The MEROPS database as a protease information system. J. Struct. Biol. 134, 95-102.
9. Gorbalenya, A.E., Donchenko, A.P., Blinov, V.M. and Koonin, E.V. (1989). Cysteine proteases of positive strand RNA viruses and chymotrypsin-like serine proteases. A distinct protein superfamily with a common structural fold. FEBS Lett. 243, 103-114.
10. Hartley, B.S. (1960). Proteolytic enzymes. Annu. Rev. Biochem. 29, 45-72.
11. Matthews, D.A., Smith, W.W., Ferre, R.A., Condon, B., Budahazi, G., Sisson, W., Villafranca, J.E., Janson, C.A., McElroy, H.E., Gribskov, C.L. and Worland, S. (1994). Structure of human rhinovirus 3C protease reveals a trypsin-like polypeptide fold, RNA-binding site, and means for cleaving precursor polyprotein. Cell 77, 761-771.
12. Rawlings, N.D., and Barrett, A.J. (1993). Evolutionary families of peptidases. Biochem. J. 290, 205-218.
13. Rawlings, N.D., and Barrett, A.J. (1994a). Families of serine peptidases. Methods Enzymol. 244, 19-61.
14. Rawlings, N.D., and Barrett, A.J. (1994b). Families of cysteine peptidases. Methods Enzymol. 244, 461-486.
15. Rawlings, N.D., and Barrett, A.J. (1995a). Families of aspartic peptidases, and those of unknown catalytic mechanism. Methods Enzymol. 248, 105-120.
16. Rawlings, N.D., and Barrett,A.J. (1995b). Evolutionary families of metallopeptidases. Methods Enzymol. 248, 183-228.
17. Rawlings, N.D., and Barrett, A.J. (2000). MEROPS: the peptidase database. Nucleic Acids Res. 28, 323-325.
18. Rawlings, N.D., O'Brien, E., and Barrett, A.J. (2002). MEROPS: the protease database. Nucleic Acids Res. 30, 343-346.
19. Seemüller, E., Lupas, A., Stock, D., Löwe, J., Huber, R., and Baumeister, W. (1995). Proteasome from Thermoplasma acidophilum: a threonine protease. Science 268, 579-582.
20. Southan, C. (2001). A genomic perspective on human proteases as drug targets. Drug Discov. Today 6, 681-688.