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Domain Fishing: a first step in protein comparative modelling

2002; Oxford University Press; Volume: 18; Issue: 8 Linguagem: Inglês

10.1093/bioinformatics/18.8.1141

1367-4811

Bruno Contreras‐Moreira, Paul A. Bates,

RNA and protein synthesis mechanisms

Abstract Summary: To optimize the search for structural templates in protein comparative modelling, the query sequence is split into domains. The initial list of templates for each domain, extracted from PFAM plus PDB and SCOP, is then ranked according to sequence identity (%ID), coverage and resolution. If %ID is less than 30, secondary structure matching is used to filter out false templates. Availability: http://www.bmm.icnet.uk/~3djigsaw/dom_fish Contact: b.contreras-moreira@cancer.org.ukpaul.bates@cancer.org.uk * To whom correspondence should be addressed.