Database of Structural Motifs in Proteins | Zendy

Kunchur Guruprasad | Zendy; M.S. Prasad | Zendy; G.R. Kumar | Zendy

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Database of Structural Motifs in Proteins

Author(s) -

Kunchur Guruprasad,

M.S. Prasad,

G.R. Kumar

Publication year - 2000

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/16.4.372

Subject(s) - protein data bank , computer science , data bank , structural motif , protein data bank (rcsb pdb) , protein structure , database , protein structure database , sequence (biology) , set (abstract data type) , computational biology , data mining , sequence database , chemistry , biology , programming language , biochemistry , telecommunications , gene

The database of structural motifs in proteins (DSMP) contains data relevant to helices, beta-turns, gamma-turns, beta-hairpins, psi-loops, beta-alpha-beta motifs, beta-sheets, beta-strands and disulphide bridges extracted from all proteins in the Protein Data Bank primarily using the PROMOTIF program and implemented as a web-based network service using the SRS. The data corresponding to the structural motifs includes; sequence, position in polypeptide chain, geometry, type, unique code, keywords and resolution of crystal structure. This data is available for a representative data set of 1028 protein chains and also for all 10 213 proteins in the Protein Data Bank. The three-dimensional coordinates for all structural motifs (except sheet and disulphide bridge) are also available for the representative data set. Using features in SRS, DSMP can be queried to extract information from one or more structural motifs that may be useful for sequence-structure analysis, prediction, modelling or design.

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