Blocks-based methods for detecting protein homology.

نویسندگان

  • J G Henikoff
  • S Pietrokovski
  • C M McCallum
  • S Henikoff
چکیده

The most highly conserved regions of proteins can be represented as blocks of aligned sequence segments, typically with multiple blocks for a given protein family. The Blocks Database World Wide Web (http://blocks.fhcrc.org) and e-mail (blocks@blocks. fhcrc.org) servers provide tools to search DNA and protein queries against the Blocks+ Database of multiple alignments. We describe features for detection of distant relationships using blocks. Blocks+ includes protein families from the PROSITE, Prints, Pfam-A, ProDom and Domo databases. Other features include searching Blocks+ with the BLIMPS and NCBI's IMPALA programs, sequence logos, phylogenetic trees, three-dimensional display of blocks on PDB structures, and a polymerase chain reaction (PCR) primer design strategy based on blocks.

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عنوان ژورنال:
  • Electrophoresis

دوره 21 9  شماره 

صفحات  -

تاریخ انتشار 2000