Protein structure computing in the genomic era

被引：108

作者：

Schwede, T ^{[1
]}

Diemand, A ^{[1
]}

Guex, N ^{[1
]}

Peitsch, MC ^{[1
]}

机构：

[1] Swiss Inst Bioinformat, Glaxo Wellcome Expt Res, CH-1228 Plan Les Ouates, Switzerland

来源：

RESEARCH IN MICROBIOLOGY | 2000年 / 151卷 / 02期

关键词：

protein structure; protein modelling; bioinformatics; database; functional analysis;

D O I：

10.1016/S0923-2508(00)00121-2

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Functional analysis of the proteins discovered in fully sequenced genomes represents the next major challenge of life science research. Computational methods play a crucial role in this activity and, among them, comparative protein modelling is of great assistance during the rational design of mutagenesis experiments. Our aim over the last several years has been to further the use of 3-D model structures in this field. Therefore, we have developed a comparative protein modelling environment composed of the Swiss-PdbViewer (sequence to structure workbench and viewing program), SWISS-MODEL (internet-based server for model generation) and a database of a model generated with 3DCrunch. (C) 2000 Editions scientifiques et medicales Elsevier SAS.

引用

页码：107 / 112

页数：6

共 24 条

[1] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[2] The SWISS-PROT protein sequence data bank and its new supplement TREMBL [J].

Bairoch, A ;

Apweiler, R .

NUCLEIC ACIDS RESEARCH, 1996, 24 (01) :21-25

[3] KNOWLEDGE-BASED MODEL-BUILDING OF PROTEINS - CONCEPTS AND EXAMPLES [J].

BAJORATH, J ;

STENKAMP, R ;

ARUFFO, A .

PROTEIN SCIENCE, 1993, 2 (11) :1798-1810

[4] PROTEIN DATA BANK - COMPUTER-BASED ARCHIVAL FILE FOR MACROMOLECULAR STRUCTURES [J].

BERNSTEIN, FC ;

KOETZLE, TF ;

WILLIAMS, GJB ;

MEYER, EF ;

BRICE, MD ;

RODGERS, JR ;

KENNARD, O ;

SHIMANOUCHI, T ;

TASUMI, M .

JOURNAL OF MOLECULAR BIOLOGY, 1977, 112 (03) :535-542

[5] THE RELATION BETWEEN THE DIVERGENCE OF SEQUENCE AND STRUCTURE IN PROTEINS [J].

CHOTHIA, C ;

LESK, AM .

EMBO JOURNAL, 1986, 5 (04) :823-826

[6] New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling [J].

Duret, L ;

Guex, N ;

Peitsch, MC ;

Bairoch, A .

GENOME RESEARCH, 1998, 8 (04) :348-353

[7] SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling [J].

Guex, N ;

Peitsch, MC .

ELECTROPHORESIS, 1997, 18 (15) :2714-2723

[8] CHARACTERIZATION OF THE NONFUNCTIONAL FAS LIGAND OF GLD MICE [J].

HAHNE, M ;

PEITSCH, MC ;

IRMLER, M ;

SCHROTER, M ;

LOWIN, B ;

ROUSSEAU, M ;

BRON, C ;

RENNO, T ;

FRENCH, L ;

TSCHOPP, J .

INTERNATIONAL IMMUNOLOGY, 1995, 7 (09) :1381-1386

[9] Analysis of six protein structures predicted by comparative modeling techniques [J].

Harrison, RW ;

Chatterjee, D ;

Weber, IT .

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS, 1995, 23 (04) :463-471

[10] A TIME-EFFICIENT, LINEAR-SPACE LOCAL SIMILARITY ALGORITHM [J].

HUANG, XQ ;

MILLER, W .

ADVANCES IN APPLIED MATHEMATICS, 1991, 12 (03) :337-357

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