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Protein Sci. 1999 Apr;8(4):897-904.

Protein structural topology: Automated analysis and diagrammatic representation.

Author information

1
The European Bioinformatics Institute, EMBL Outstation, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom. westhead@bmb.leeds.ac.uk

Abstract

The topology of a protein structure is a highly simplified description of its fold including only the sequence of secondary structure elements, and their relative spatial positions and approximate orientations. This information can be embodied in a two-dimensional diagram of protein topology, called a TOPS cartoon. These cartoons are useful for the understanding of particular folds and making comparisons between folds. Here we describe a new algorithm for the production of TOPS cartoons, which is more robust than those previously available, and has a much higher success rate. This algorithm has been used to produce a database of protein topology cartoons that covers most of the data bank of known protein structures.

PMID:
10211836
PMCID:
PMC2144300
DOI:
10.1110/ps.8.4.897
[Indexed for MEDLINE]
Free PMC Article

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