Using the structure-function linkage database to characterize functional domains in enzymes

Curr Protoc Bioinformatics. 2014 Dec 12:48:2.10.1-2.10.16. doi: 10.1002/0471250953.bi0210s48.

Abstract

The Structure-Function Linkage Database (SFLD; http://sfld.rbvi.ucsf.edu/) is a Web-accessible database designed to link enzyme sequence, structure, and functional information. This unit describes the protocols by which a user may query the database to predict the function of uncharacterized enzymes and to correct misannotated functional assignments. The information in this unit is especially useful in helping a user discriminate functional capabilities of a sequence that is only distantly related to characterized sequences in publicly available databases.

Keywords: annotation transfer; protein function prediction; protein sequence analysis; protein superfamily analysis; structure-function relationships.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Amino Acid Sequence
  • Databases, Protein*
  • Enzymes / chemistry
  • Enzymes / metabolism*
  • Internet
  • Molecular Sequence Data
  • Sequence Homology, Amino Acid
  • Structure-Activity Relationship
  • User-Computer Interface

Substances

  • Enzymes