A model of Cdc25 phosphatase catalytic domain and Cdk-interaction surface based on the presence of a rhodanese homology domain

Journal of Molecular Biology - Tập 282 - Trang 195-208 - 1998
Kay Hofmann1, Philipp Bucher1, Andrey V Kajava1
1Bioinformatics Group Swiss Institute for Experimental Cancer Research Chemin des Boveresses 155 CH-1066, Epalinges Switzerland

Tài liệu tham khảo

Abagyan, 1994, ICM-a new method for protein modeling and design, J. Comput. Chem., 15, 488, 10.1002/jcc.540150503 Bairoch, 1997, The Swiss-Prot Protein Sequence Data Bank and Its Supplement Trembl, Nucl. Acids Res., 25, 31, 10.1093/nar/25.1.31 Barford, 1996, Molecular mechanisms of the protein serine/threonine phosphatases, Trends Biochem. Sci., 21, 407, 10.1016/S0968-0004(96)10060-8 Barford, 1994, Crystal structure of human protein tyrosine phosphatase 1B, Science, 263, 1397, 10.1126/science.8128219 Benton, 1990, Recent changes in the GenBank On-line Service, Nucl. Acids Res., 18, 1517, 10.1093/nar/18.6.1517 Bliska, 1995, Crystal structure of the Yersinia tyrosine phosphatase, Trends Microbiol., 3, 125, 10.1016/S0966-842X(00)88898-8 Bobrowicz, 1997, Isolation of three contiguous genes, ACR1, ACR2 and ACR3, involved in resistance to arsenic compounds in the yeastSaccharomyces cerevisiae, Yeast, 13, 819, 10.1002/(SICI)1097-0061(199707)13:9<819::AID-YEA142>3.0.CO;2-Y Bott, 1994, The sevenmaker gain-of-function mutation in p42 MAP kinase leads to enhanced signalling and reduced sensitivity to dual specificity phosphatase action, FEBS Letters, 352, 201, 10.1016/0014-5793(94)00958-9 Bucher, 1994, A generalized profile syntax for biomolecular sequence motifs and its function in automatic sequence interpretation, Ismb, 2, 53 Bucher, 1996, A flexible motif search technique based on generalized profiles, Comput. Chem., 20, 3, 10.1016/S0097-8485(96)80003-9 Canagarajah, 1997, Activation mechanism of the MAP kinase ERK2 by dual phosphorylation, Cell, 90, 859, 10.1016/S0092-8674(00)80351-7 Chu, 1996, The mitogen-activated protein kinase phosphatases PAC1, KMP-1, and MKP-2 have unique substrate specificities and reduced activity in vivo toward the ERK2 sevenmaker mutation, J. Biol. Chem., 271, 6497, 10.1074/jbc.271.11.6497 Draetta, 1997, Cdc25 protein phosphatases in cell proliferation, Biochim. Biophys. Acta, 1332, M53 Dunphy, 1991, The cdc25 protein contains an intrinsic phosphatase activity, Cell, 67, 189, 10.1016/0092-8674(91)90582-J Eckstein, 1996, Identification of an essential acidic residue in Cdc25 protein phosphatase and a general three-dimensional model for a core region in protein phosphatases, Protein Sci., 5, 5, 10.1002/pro.5560050102 Fauman, 1996, Structure and function of the protein tyrosine phosphatases, Trends Biochem. Sci., 21, 413, 10.1016/S0968-0004(96)10059-1 Fauman, 1998, Crystal structure of the catalytic domain of the human cell cycle control phosphatase, Cdc25A, Cel, 93, 617, 10.1016/S0092-8674(00)81190-3 Felsenstein, 1996, Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods, Methods Enzymol., 266, 418, 10.1016/S0076-6879(96)66026-1 Furnari, 1997, Cdc25 mitotic inducer targeted by chk1 DNA damage checkpoint kinase, Science, 277, 1495, 10.1126/science.277.5331.1495 Galaktionov, 1995, CDC25 phosphatases as potential human oncogenes, Science, 269, 1575, 10.1126/science.7667636 Gautier, 1991, cdc25 is a specific tyrosine phosphatase that directly activates p34cdc2, Cell, 67, 197, 10.1016/0092-8674(91)90583-K Henikoff, 1992, Amino acid substitution matrices from protein blocks, Proc. Natl Acad. Sci. USA, 89, 10915, 10.1073/pnas.89.22.10915 Higgins, 1996, Using CLUSTAL for multiple sequence alignments, Methods Enzymol., 266, 383, 10.1016/S0076-6879(96)66024-8 Hochstrasser, 1996, Ubiquitin-dependent protein degradation, Annu. Rev. Genet., 30, 405, 10.1146/annurev.genet.30.1.405 Hofmann, 1995, The FHA domain, Trends Biochem. Sci., 20, 347, 10.1016/S0968-0004(00)89072-6 Hofmann, 1996, The UBA domain, Trends Biochem. Sci., 21, 172, 10.1016/S0968-0004(96)30015-7 Hubbard, 1991, Molecular recognition. Conformational analysis of limited proteolytic sites and serine proteinase protein inhibitors, J. Mol. Biol., 220, 507, 10.1016/0022-2836(91)90027-4 Jeffrey, 1995, Mechanism of CDK activation revealed by the structure of a cyclinA-CDK2 complex, Nature, 376, 313, 10.1038/376313a0 Keyse, 1993, Amino acid sequence similarity between CL100, a dual-specificity MAP kinase phosphatase and cdc25, Trends Biochem. Sci., 18, 377, 10.1016/0968-0004(93)90092-2 King, 1996, How proteolysis drives the cell cycle, Science, 274, 1652, 10.1126/science.274.5293.1652 Kraulis, 1991, MOLSCRIPT, J. Appl. Crystallog., 24, 946, 10.1107/S0021889891004399 Lee, 1971, The interpretation of protein structures, J. Mol. Biol., 55, 379, 10.1016/0022-2836(71)90324-X Luthy, 1994, Improving the sensitivity of the sequence profile method, Protein Sci., 3, 139, 10.1002/pro.5560030118 Millar, 1991, p80cdc25 mitotic inducer is the tyrosine phosphatase that activates p34cdc2 kinase in fission yeast, EMBO J., 19, 4301, 10.1002/j.1460-2075.1991.tb05008.x Muda, 1997, Molecular cloning and functional characterization of a novel mitogen-activated protein kinase phosphatase, MKP-4, J. Biol. Chem., 272, 5141, 10.1074/jbc.272.8.5141 Nigg, 1995, Cyclin-dependent protein kinases, Bioessays, 17, 471, 10.1002/bies.950170603 Ploegman, 1978, Structure of bovine liver rhodanese. I. Structure determination at 2.5 A resolution and a comparison of the conformation and sequence of its two domains, J. Mol. Biol., 123, 557, 10.1016/0022-2836(78)90207-3 Ploegman, 1979, The structure of bovine liver rhodanese. II. The active site in the sulfur-substituted and the sulfur-free enzyme, J. Mol. Biol., 127, 149, 10.1016/0022-2836(79)90236-5 Rost, 1996, PHD, Methods Enzymol., 266, 525, 10.1016/S0076-6879(96)66033-9 Roussel, 1989, 77 Russell, 1986, cdc25+ functions as an inducer in the mitotic control of fission yeast, Cell, 45, 145, 10.1016/0092-8674(86)90546-5 Russell, 1987, Negative regulation of mitosis by wee1+, a gene encoding a protein kinase homolog, Cell, 49, 559, 10.1016/0092-8674(87)90458-2 Saitou, 1987, The neighbor-joining method, Mol. Biol. Evol., 4, 406 Sanchez, 1997, Conservation of the Chk1 checkpoint pathway in mammals, Science, 277, 1497, 10.1126/science.277.5331.1497 Sayle, 1995, PdbAlign, PdbDist and DistAlign, Comput. Appl. Biosci., 11, 571 Singer, 1996, Coordinating DNA replication to produce one copy of the genome requires genes that act in ubiquitin metabolism, Mol. Cell. Biol., 16, 1356, 10.1128/MCB.16.4.1356 Stein, 1995, Kinetic studies of isopeptidase T, Biochemistry, 34, 12616, 10.1021/bi00039a017 Stuckey, 1994, Crystal structure of Yersinia protein tyrosine phosphatase at 2.5 Å and the complex with tungstate, Nature, 370, 571, 10.1038/370571a0 Sun, 1993, MKP-1 3CH134, an immediate early gene product, is a dual specificity phosphatase that dephosphorylates MAP kinase in vivo, Cell, 75, 487, 10.1016/0092-8674(93)90383-2 Wilkinson, 1997, Regulation of ubiquitin dependent processes by deubiquitnating enzymes, FASEB J., 11, 1245, 10.1096/fasebj.11.14.9409543 Xu, 1996, Roles of active site residues and the NH2-terminal domain in the catalysis and substrate binding of human Cdc25, J. Biol. Chem., 271, 5118, 10.1074/jbc.271.9.5118 Yuvaniyama, 1996, Crystal structure of the dual specificity protein phosphatase VHR, Science, 272, 1328, 10.1126/science.272.5266.1328 Zhang, 1997, Crystal structure of bovine low molecular weight phosphotyrosyl phosphatase complexed with the transition state analog vanadate, Biochemistry, 36, 15, 10.1021/bi961804n Zvelebil, 1987, Prediction of protein secondary structure and active sites using the alignment of homologous sequences, J. Mol. biol., 195, 957, 10.1016/0022-2836(87)90501-8