PISCES: a protein sequence culling server

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ID: 291499
2003
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Abstract
Abstract Summary: PISCES is a public server for culling sets of protein sequences from the Protein Data Bank (PDB) by sequence identity and structural quality criteria. PISCES can provide lists culled from the entire PDB or from lists of PDB entries or chains provided by the user. The sequence identities are obtained from PSI-BLAST alignments with position-specific substitution matrices derived from the non-redundant protein sequence database. PISCES therefore provides better lists than servers that use BLAST, which is unable to identify many relationships below 40% sequence identity and often overestimates sequence identity by aligning only well-conserved fragments. PDB sequences are updated weekly. PISCES can also cull non-PDB sequences provided by the user as a list of GenBank identifiers, a FASTA format file, or BLAST/PSI-BLAST output. Availability: The server is located at http://www.fccc.edu/research/labs/dunbrack/pisces Contact: rl_dunbrack@fccc.edu * To whom correspondence should be addressed.
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openalex_W2153153865 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Guoli Wang, Roland L. Dunbrack
Journal BMC Bioinformatics
Year 2003
DOI
10.1093/bioinformatics/btg224
URL
https://academic.oup.com/bioinformatics/article-pdf/19/12/1589/718266/btg224.pdf
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