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β‐Sheet topology A new system of nomenclature
Author(s) -
Flower Darren R.
Publication year - 1994
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/0014-5793(94)00393-9
Subject(s) - social connectedness , topology (electrical circuits) , sequence (biology) , beta sheet , path (computing) , net (polyhedron) , notation , network topology , topological space , computer science , mathematics , protein structure , combinatorics , chemistry , pure mathematics , geometry , programming language , psychology , biochemistry , arithmetic , psychotherapist , operating system
The topology of a protein β‐sheet, the relationship between the sequential ordering of strands and their connectedness in space, is an important and well studied feature of protein structures. The prevalent nomenclature for describing β‐sheet topologies is based on following a path through the sequence order of strands and noting their separation in space. Although powerful, this approach can be usefully complemented by a notation based on following a path through the connectedness of neighbouring strands and noting sequence separation. This leads in turn to a short hand expression of sheet topology, based on a method for describing the covalent structure of small molecules, which is able to express concisely the complex non‐linear topological relationships of β‐sheets, including bifurcations and closed structures, in a clear and natural manner. Using this novel system of notation it is possible to follow simultaneously the sequence and hydrogen bonded connectedness of strands within the topology of a sheet.