SCOP database in 2002: refinements accommodate structural genomics | Zendy

Loredana Lo Conte | Zendy

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SCOP database in 2002: refinements accommodate structural genomics

Author(s) -

Loredana Lo Conte

Publication year - 2002

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/30.1.264

Subject(s) - compendium , structural classification of proteins database , identifier , biology , structural genomics , set (abstract data type) , domain (mathematical analysis) , hierarchy , genomics , database , representation (politics) , protein domain , protein family , information retrieval , computational biology , computer science , genome , protein structure , genetics , gene , history , mathematical analysis , biochemistry , mathematics , archaeology , politics , economics , political science , law , market economy , programming language

The SCOP (Structural Classification of Proteins) database is a comprehensive ordering of all proteins of known structure, according to their evolutionary and structural relationships. Protein domains in SCOP are grouped into species and hierarchically classified into families, superfamilies, folds and classes. Recently, we introduced a new set of features with the aim of standardizing access to the database, and providing a solid basis to manage the increasing number of experimental structures expected from structural genomics projects. These features include: a new set of identifiers, which uniquely identify each entry in the hierarchy; a compact representation of protein domain classification; a new set of parseable files, which fully describe all domains in SCOP and the hierarchy itself. These new features are reflected in the ASTRAL compendium. The SCOP search engine has also been updated, and a set of links to external resources added at the level of domain entries. SCOP can be accessed at http://scop.mrc-lmb.cam.ac.uk/scop.

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