PairsDB
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PairsDB

PairsDB is a collection of protein sequences and the BLAST and PSI-BLAST alignments between them. Instead of running BLAST or PSI-BLAST individually, results can be retrieved from a database of pre-computed alignments. PairsDB is continually updated and we aim to be as comprehensive as possible.

PairsDB Queries

  • Seq Info allows you to view all information about a particular protein sequence of interest from the PairsDB database.
  • BLAST allows you to find BLAST matches for a sequence. Matches can be filtered and viewed in a multiple alignment.
  • PSI-BLAST allows you to find PSIBLAST matches for a sequence. Matches can be filtered and viewed in a multiple alignment.
  • Seq Space Filter allows you to find a set of sequences satisfying a set of criteria (for example, all human proteins without transmembrane segments and solved structure).

More Information

PairsDB was developed by Prof. Liisa Holm and Dr. Andreas Heger, and it is maintained jointly with CSC.
The current PairsDB version is based on a sequence set collected on February 2009.