The Lipase Engineering Database: A navigation and analysis tool for protein families

Nucleic Acids Research

Volumn 31, Issue 1, 2003, Pages 319-321

  Fischer, Markus ^a   Pleiss, Jürgen ^a  

^a UNIVERSITY OF STUTTGART   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ACETYLCHOLINESTERASE; CARBOXYLESTERASE; CUTINASE; ENZYME; ESTERASE; GLIOTACTIN; GLUTACTIN; NEUROLIGIN; NEUROTACTIN; PEROXIDASE; PHOSPHOLIPASE; THIOL ESTER HYDROLASE; THYROGLOBULIN; TRIACYLGLYCEROL LIPASE; UNCLASSIFIED DRUG;

CALCULATION; ENZYME ACTIVE SITE; ENZYME ANALYSIS; ENZYME SPECIFICITY; ENZYME STRUCTURE; INTERNET; LIPASE ENGINEERING DATABASE; MOLECULAR PHYLOGENY; MUTANT; NONHUMAN; PRIORITY JOURNAL; PROTEIN DATABASE; PROTEIN FAMILY; PROTEIN FUNCTION; REVIEW; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; STRUCTURE ACTIVITY RELATION;

AMINO ACID SEQUENCE; BINDING SITES; DATABASES, PROTEIN; ESTERASES; INTERNET; LIPASE; PHYLOGENY; PROTEIN ENGINEERING; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY, AMINO ACID; SOFTWARE; SUBSTRATE SPECIFICITY;

EID: 0037246592     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkg015     Document Type: Review

References (23)

1. Schmid,R.D. and Verger,R. (1998) Lipases: interfacial enzymes with attractive applications. Angew. Chem. Int. Ed. Engl., 37, 1608-1633.
2. Kazlauskas,R.J. and Bornscheuer,U.T. (1998) Biotransformations With Lipases. Wiley-VCH, Weinheim, NY.
3. Ollis,D.L., Cheah,E., Cygler,M., Dijkstra,B., Frolow,F., Franken,S.M., Harel,M., Remington,S.J., Silman,I., Schrag,J.D. et al. (1992) The α/β hydrolase fold. Protein Eng., 5, 197-211.
4. Chapus,C., Rovery,M., Sarda,L. and Verger,R. (1988) Minireview on pancreatic lipase and colipase. Biochimie, 70, 1223-1234.
5. Derewenda,U., Brzozowski,A.M., Lawson,D.M. and Derewenda,Z.S. (1992) Catalysis at the interface: the anatomy of a conformational change in a triglyceride lipase. Biochemistry, 31, 1532-1541.
6. Uppenberg,J., Patkar,S., Bergfors,T. and Jones,T.A. (1994) Crystallization and preliminary X-ray studies of lipase B from Candida antarctica. J. Mol. Biol., 235, 790-792.
7. Lang,D.A., Mannesse,M.L., de Haas,G.H., Verheij,H.M. and Dijkstra,B.W. (1998) Structural basis of the chiral selectivity of Pseudomonas cepacia lipase. Eur. J. Biochem., 254, 333-340.
8. Scheib,H., Pleiss,J., Stadler,P., Kovac,A., Potthoff,A.P., Haalck,L., Spener,F., Paltauf,F. and Schmid,R.D. (1998) Rational design of Rhizopus oryzae lipase with modified stereoselectivity toward triradylglycerols. Protein Eng., 11, 675-682.
9. Schulz,T., Pleiss,J. and Schmid,R.D. (2000) Stereoselectivity of Pseudomonas cepacia lipase toward secondary alcohols: a quantitative model. Protein Sci., 1053-1062.
10. Pleiss,J., Fischer,M., Peiker,M., Thiele,C. and Schmid,R.D. (2000) Lipase Engineering Database-understanding and exploiting sequence-structure-function relationships. J. Mol. Catal. B-Enzym., 10, 491-508.
11. Pleiss,J., Fischer,M. and Schmid,R.D. (1998) Anatomy of lipase binding sites: the scissile fatty acid binding site. Chem. Phys. Lipids, 93, 67-80.
12. Benson,D.A., Karsch-Mizrachi,I., Lipman,D.J., Ostell,J., Rapp,B.A. and Wheeler,D.L. (2002) GenBank. Nucleic Acids Res., 30, 17-20.
13. Berman,H.M., Battistuz,T., Bhat,T.N., Bluhm,W.F., Bourne,P.E., Burkhardt,K., Feng,Z., Gilliland,G.L., Iype,L., Jain,S. et al. (2002) The Protein Data Bank. Acta Crystallog. D Biol. Crystallogr., 58, 899-907.
14. Altschul,S.F., Madden,T.L., Schaffer,A.A., Zhang,J., 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.
15. Schwede,T., Diemand,A., Guex,N. and Peitsch,M.C. (2000) Protein structure computing in the genomic era. Res. Microbiol., 151, 107-112.
16. Kabsch,W. and Sander,C. (1983) Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22, 2577-2637.
17. Thompson,J.D., Higgins,D.G. and Gibson,T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
18. Schmidt,H.A., Strimmer,K., Vingron,M. and von Haeseler,A. (2002) TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics, 18, 502-504.
19. Henke,E., Pleiss,J. and Bornscheuer,U.T. Activity of lipases and esterases towards tertiary alcohols: new insights into structure-function relationships. Angew. Chem., in press.
20. Joerger,R.D. and Haas,M.J. (1994) Alteration of chain length selectivity of a Rhizopus delemar lipase through site-directed mutagenesis. Lipids, 29, 377-384.
21. Beer,H.D., Wohlfahrt,G., McCarthy,J.E.G., Schomburg,D. and Schmid,R.D. (1996) Analysis of the catalytic mechanism of a fungal lipase using computer-aided design and structural mutants. Protein Eng., 9, 507-517.
22. Atomi,H., Bornscheuer,U., Soumanou,M.M., Beer,H.D., Wohlfahrt,G. and Schmid,R.D. (1996) Oils-Fats-Lipids, 21st World Congress Int. Soc. Fat. Res. PJ Barnes & Associates, Bridgewater, pp. 49-50.
23. Schmitt,J., Brocca,S., Schmid,R.D. and Pleiss,J. Blocking the tunnel: engineering of Candida rugosa lipase mutants with short chain length specificity. Protein Eng., in press.