[en] HSSP is a derived database merging structural three dimensional (3-D) and sequence one dimensional (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 27% of all Swissprotstored sequences.
Disciplines :
Biochimie, biophysique & biologie moléculaire
Identifiants :
UNILU:UL-ARTICLE-2012-030
Auteur, co-auteur :
SCHNEIDER, Reinhard ; University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB)
Sander, C.
Co-auteurs externes :
yes
Langue du document :
Anglais
Titre :
The HSSP database of protein structure sequence alignments
