BSDD: Biomolecules Segment Display Device--a web-based interactive display tool | Zendy

P. Selvarani | Zendy; V. Shanthi | Zendy; C. K. Rajesh | Zendy; S. Saravanan | Zendy; K. Sekar | Zendy

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BSDD: Biomolecules Segment Display Device--a web-based interactive display tool

Author(s) -

P. Selvarani,

V. Shanthi,

C. K. Rajesh,

S. Saravanan,

K. Sekar

Publication year - 2004

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkh420

Subject(s) - protein data bank (rcsb pdb) , software , protein data bank , graphics , user interface , web server , interface (matter) , computer science , biology , graphical user interface , computer graphics (images) , visualization , computational biology , bioinformatics , world wide web , protein structure , data mining , the internet , operating system , biochemistry , bubble , maximum bubble pressure method

An interactive web-based display tool, Biomolecules Segment Display Device (BSDD), has been developed to search for and visualize a user-defined motif or fragment among the protein structures available in the Protein Data Bank (PDB). In addition, the tool works for the structures available in a selected sub-set of non-homologous protein structures (25% and 90% sequence identity). The graphics package RASMOL has been incorporated as an interface to visualize the three-dimensional structure of the user-defined motif. In addition, the software can be used to extract the atomic coordinates of the required fragment and save them to the client system. The atomic coordinates are updated every week from the RCSB-PDB server, and hence the results produced by BSDD are up to date at any given time. The software BSDD is available over the World Wide Web at http://iris.physics.iisc.ernet.in/bsdd or http://144.16.71.2/bsdd.

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