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. 1997 Jan 1;25(1):226-30.
doi: 10.1093/nar/25.1.226.

The HSSP database of protein structure-sequence alignments

R Schneider  1 , A de Daruvar, C Sander
Affiliations

The HSSP database of protein structure-sequence alignments

R Schneider et al. Nucleic Acids Res. .

Abstract

HSSP is a derived database merging structural (3-D) and sequence (1-D) information. For each protein of known 3-D structure from the Protein Data Bank (PDB), the database has a multiple sequence alignment of all available homologues and a sequence profile characteristic of the family. The list of homologues is the result of a database search in SwissProt using a position-weighted dynamic programming method for sequence profile alignment (MaxHom). The database is updated frequently. The listed homologues are very likely to have the same 3-D structure as the PDB protein to which they have been aligned. As a result, the database is not only a database of aligned sequence families, but also a database of implied secondary and tertiary structures covering 29% of all SwissProt-stored sequences.

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