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Protein structural topology: Automated analysis and diagrammatic representation

1999; Wiley; Volume: 8; Issue: 4 Linguagem: Inglês

10.1110/ps.8.4.897

1469-896X

David R. Westhead, Timothy Slidel, Tomas P. Flores, Janet M. Thornton,

Glycosylation and Glycoproteins Research

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.