Nucleic Acids Research, Vol 24, Issue 1 206-209, Copyright © 1996 by Oxford University Press
L Holm and C Sander
The FSSP database presents a continuously updated classification of 3-D
protein folds based on an all-against-all comparison of structures
currently in the Protein Data Bank (PDB) [Bernstein et al. (1977) J. Mol.
Biol., 112, 535- 542]. The database currently contains an extended
structural family for each of 600 representative protein chains which have
<25% mutual sequence identity. The results of the exhaustive pairwise
structure comparisons are reported in the form of a fold tree generated by
hierarchical clustering and as a series of structurally representative sets
of folds at varying levels of uniqueness. For each query structure from the
representative set, there is a database entry containing
structure-structure alignments with its structural neighbours in the
representative set and its sequence homologs in the PDB. All alignments are
based purely on the 3-D co-ordinates of the proteins and are derived by an
automatic structure comparison program (Dali). The FSSP database is
accessible electronically on the World Wide Web and by anonymous ftp.
ARTICLES
The FSSP database: fold classification based on structure-structure alignment of proteins
European Molecular Biology Laboratory, Heidelberg, Germany.
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