Proteins with an alpha/beta hydrolase fold: Relationships between subfamilies in an ever-growing superfamily

Chemico-Biological Interactions

Volumn 203, Issue 1, 2013, Pages 266-268

  Lenfant, Nicolas ^a,c   Hotelier, Thierry ^b   Bourne, Yves ^c   Marchot, Pascale ^c   Chatonnet, Arnaud ^a  

^a University of Montpellier   (France)

^b CEMAGREF   (France)

^c CNRS   (France)

Author keywords

Alpha beta hydrolase; Cholinesterase; Epoxide hydrolase; Haloalkane dehalogenase; Lipase; Moonlighting protein

Indexed keywords

ACETYLCHOLINESTERASE; ALPHA HYDROLASE; BETA HYDROLASE; CARBOXYLESTERASE; CHOLINESTERASE; HYDROLASE; NEUROLIGIN; UNCLASSIFIED DRUG;

CATALYSIS; COMPUTER INTERFACE; CONFERENCE PAPER; ENZYME ACTIVE SITE; ENZYME ANALYSIS; ESTHER DATABASE; GENE DUPLICATION; INFORMATION PROCESSING; INTERNET; MOLECULAR PHYLOGENY; PARALOGY; PROTEIN DATABASE; PROTEIN FAMILY; PROTEIN FOLDING; PROTEIN FUNCTION; TORPEDO CALIFORNICA;

ANIMALS; CATALYTIC DOMAIN; DATABASES, PROTEIN; HUMANS; HYDROLASES; MUTATION; PHYLOGENY; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; SEQUENCE ALIGNMENT;

EID: 84875805210     PISSN: 00092797     EISSN: 18727786     Source Type: Journal    
DOI: 10.1016/j.cbi.2012.09.003     Document Type: Conference Paper

References (31)

1. J.L. Sussman, M. Harel, F. Frolow, C. Oefner, A. Goldman, L. Toker, and I. Silman Atomic structure of acetylcholinesterase from Torpedo californica: a prototypic acetylcholine-binding protein Science 253 1991 872 879
2. D.L. Ollis, E. Cheah, M. Cygler, B. Dijkstra, F. Frolow, S.M. Franken, M. Harel, S.J. Remington, I. Silman, J. Schrag, K.H.G. Verschueren, and A. Goldman The alpha/beta hydrolase fold Protein Eng. 5 1992 197 211
3. M. Nardini, and B.W. Dijkstra Alpha/beta hydrolase fold enzymes: the family keeps growing Curr. Opin. Struct. Biol. 9 1999 732 737
4. P. Heikinheimo, A. Goldman, C. Jeffries, and D.L. Ollis Of barn owls and bankers: a lush variety of alpha/beta hydrolases Structure 7 1999 R141 146
5. 2 Bioorg. Chem. 32 2004 367 375
6. P.D. Carr, and D.L. Ollis Alpha/beta hydrolase fold: an update Protein Pept. Lett. 16 2009 1137 1148
7. X. Cousin, T. Hotelier, P. Lievin, J.P. Toutant, and A. Chatonnet A cholinesterase genes server (ESTHER): a database of cholinesterase-related sequences for multiple alignments, phylogenetic relationships, mutations and structural data retrieval Nucleic Acids Res. 24 1996 132 136
8. X. Cousin, T. Hotelier, K. Giles, P. Lievin, J.P. Toutant, and A. Chatonnet The alpha/beta fold family of proteins database and the cholinesterase gene server ESTHER Nucleic Acids Res. 25 1997 143 146
9. X. Cousin, T. Hotelier, K. Giles, J.P. Toutant, and A. Chatonnet ACHEdb: the database system for ESTHER, the alpha/beta fold family of proteins and the Cholinesterase gene server Nucleic Acids Res. 26 1998 226 228
10. A. Chatonnet, T. Hotelier, and X. Cousin Kinetic parameters of cholinesterase interactions with organophosphates: retrieval and comparison tools available through ESTHER database: ESTerases, alpha/beta Hydrolase Enzymes and Relatives Chem. Biol. Interact. 119-120 1999 567 576
11. A. Chatonnet, X. Cousin, and A. Robinson Links between kinetic data and sequences in the alpha/beta-hydrolases fold database Brief Bioinf. 2 2001 30 37
12. T. Hotelier, L. Renault, X. Cousin, V. Nègre, P. Marchot, and A. Chatonnet ESTHER, the database of the alpha/beta-hydrolase fold superfamily of proteins Nucleic Acids Res. 32 2004 D145 147
13. L. Renault, V. Nègre, T. Hotelier, X. Cousin, P. Marchot, and A. Chatonnet New friendly tools for users of ESTHER, the database of the alpha/beta-hydrolase fold superfamily of proteins Chem. Biol. Interact. 157-158 2005 339 343
14. J. Prilusky, E. Hodis, D. Canner, W.A. Decatur, K. Oberholser, E. Martz, A. Berchanski, M. Harel, and J.L. Sussman Proteopedia: a status report on the collaborative, 3D web-encyclopedia of proteins and other biomolecules J. Struct. Biol. 175 2011 244 252
15. T. Hotelier, V. Nègre, P. Marchot, and A. Chatonnet Insecticide resistance through mutations in cholinesterases or carboxylesterases: data mining in the ESTHER database J. Pestic. Sci. 35 2010 315 320
16. E. Krejci, N. Duval, A. Chatonnet, P. Vincens, and J. Massoulié Cholinesterase-like domains in enzymes and structural proteins: functional and evolutionary relationships and identification of a catalytically essential aspartic acid Proc. Natl. Acad. Sci. USA 88 1991 6647 6651
17. P. Marchot, and A. Chatonnet Enzymatic activity and protein interactions in alpha/beta hydrolase fold proteins: moonlighting versus promiscuity Protein Pept. Lett. 19 2012 132 143
18. P. Marchot, and A. Chatonnet Hydrolase versus other functions of members of the alpha/beta-hydrolase fold superfamily of proteins Protein Pept. Lett. 19 2012 130 131
19. K. Hirano, K. Aya, M. Matsuoka, and M. Ueguchi-Tanaka Molecular determinants that convert hormone sensitive lipase into gibberellin receptor Protein Pept. Lett. 19 2012 180 185
20. A. Vogel-Hopker, L.E. Sperling, and P.G. Layer Co-opting functions of cholinesterases in neural, limb and stem cell development Protein Pept. Lett. 19 2012 155 164
21. G. Manco, L. Merone, E. Porzio, Y. Feng, and L. Mandrich Enzyme promiscuity in the hormone-sensitive lipase family of proteins Protein Pept. Lett. 19 2012 144 154
22. A.C. Halliday, and S.A. Greenfield From protein to peptides: a spectrum of non-hydrolytic functions of acetylcholinesterase Protein Pept. Lett. 19 2012 165 172
23. A.D. Jaco, D. Comoletti, N. Dubi, S. Camp, and P. Taylor Processing of cholinesterase-like α/β-hydrolase fold proteins: alterations associated with congenital disorders Protein Pept. Lett. 19 2012 173 179
24. C.D. Bahl, and D.R. Madden Pseudomonas aeruginosa Cif defines a distinct class of α/β epoxide hydrolases utilizing a His/Tyr ring-opening pair Protein Pept. Lett. 19 2012 186 193
25. S.M. Vorobiev, Y.J. Huang, J. Seetharaman, R. Xiao, T.B. Acton, G.T. Montelione, and L. Tong Human retinoblastoma binding protein 9, a serine hydrolase implicated in pancreatic cancers Protein Pept. Lett. 19 2012 194 197
26. J.S. Papadopoulos, and R. Agarwala COBALT: constraint-based alignment tool for multiple protein sequences Bioinformatics 23 2007 1073 1079
27. F. Sievers, A. Wilm, D.G. Dineen, T.J. Gibson, K. Karplus, W. Li, R.LopezH. McWilliam, M. Remmert, J. Söding, J.D. Thompson, and D.G. Higgins Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega Mol. Syst. Biol. 7 2011 539
28. J. Sodling Protein homology detection by HMM-HMM comparison Bioinformatics 21 2005 951 960
29. R. Desper, and O. Gascuel Fast and accurate phylogeny reconstruction algorithms based on the minimum evolution principle J. Comput. Biol. 9 2002 687 705
30. M. Punta, P.C. Coggill, R.Y. Eberhardt, J. Mistry, J. Tate, C. Boursnell, N. Pang, K. Forslund, G. Ceric, J. Clements, A. Heger, L. Holm, E.L. Sonnhammer, S.R. Eddy, A. Bateman, and R.D. Finn The Pfam protein families database Nucleic Acids Res. 40 2012 D290 301
31. S. Hunter, P. Jones, A. Mitchell, R. Apweiler, T.K. Attwood, A. Bateman, T. Bernard, D. Binns, P. Bork, S. Burge, E. de Castro, P. Coggill, M. Corbett, U. Das, L. Daugherty, L. Duquenne, R.D. Finn, M. Fraser, J. Gough, D. Haft, N. Hulo, D. Kahn, E. Kelly, I. Letunic, D. Lonsdale, R. Lopez, M. Madera, J. Maslen, C. McAnulla, J. McDowall, C. McMenamin, H. Mi, P. Mutowo-Muellenet, N. Mulder, D. Natale, C. Orengo, S. Pesseat, M. Punta, A.F. Quinn, C. Rivoire, A. Sangrador-Vegas, J.D. Selengut, C.J. Sigrist, M. Scheremetjew, J. Tate, M. Thimmajanarthanan, P.D. Thomas, C.H. Wu, C. Yeats, and S.Y. Yong InterPro in 2011: new developments in the family and domain prediction database Nucleic Acids Res. 40 2012 D306 312