UNSPECIFIED (1997) CATH - a hierarchic classification of protein domain structures. STRUCTURE, 5 (8). pp. 1093-1108. ISSN 0969-2126

Full text not available from this repository.

Abstract

Background: Protein evolution gives rise to families of structurally related proteins, within which sequence identities can be extremely low. As a result, structure-based classifications can be effective at identifying unanticipated relationships in known structures and in optimal cases function can also be assigned. The ever increasing number of known protein structures is too large to classify all proteins manually, therefore, automatic methods are needed for fast evaluation of protein structures. Results: We present a semi-automatic procedure for deriving a novel hierarchical classification of protein domain structures (CATH). The four main levels of our classification are protein class (C), architecture (A), topology (T) and homologous superfamily (H). Class is the simplest level, and it essentially describes the secondary structure composition of each domain. In contrast, architecture summarises the shape revealed by the orientations of the secondary structure units, such as barrels and sandwiches. At the topology level, sequential connectivity is considered, such that members of the same architecture might have quite different topologies. When structures belonging to the same T-level have suitably high similarities combined with similar functions, the proteins are assumed to be evolutionarily related and put into the same homologous superfamily. Conclusions: Analysis of the structural families generated by CATH reveals the prominent features of protein structure space. We find that nearly a third of the homologous superfamilies (H-levels) belong to ten major T-levels, which we call superfolds, and furthermore that nearly two-thirds of these H-levels cluster into nine simple architectures. A database of well-characterised protein structure families, such as CATH, will facilitate the assignment of structure-function/evolution relationships to both known and newly determined protein structures.

Item Type:	Journal Article
Subjects:	Q Science > QD Chemistry Q Science > QH Natural history > QH301 Biology
Journal or Publication Title:	STRUCTURE
Publisher:	CURRENT BIOLOGY LTD
ISSN:	0969-2126
Date:	15 August 1997
Volume:	5
Number:	8
Number of Pages:	16
Page Range:	pp. 1093-1108
Publication Status:	Published
URI:	http://wrap.warwick.ac.uk/id/eprint/16422

Data sourced from Thomson Reuters' Web of Knowledge

Request changes to a record

Actions (login required)

View Item