Geometrical criteria for left-handed twists within protein beta-strands - Journal of Biophysical Chemistry

JBPC > Vol.5 No.1, February 2014

Geometrical criteria for left-handed twists within protein beta-strands ()

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DOI: 10.4236/jbpc.2014.51002 4,330 Downloads 6,224 Views Citations

Author(s)

Bernard Caudron, Jean-Luc Jestin

Affiliation(s)

Centre d'Informatique pour la Biologie, Institut Pasteur, Paris, France.
Unité de Bioinformatique Structurale, Département de Biologie Structurale et Chimie, Institut Pasteur, Paris, France.

ABSTRACT

Using a statistical analysis on beta-sheet structures from the Protein Data Bank, characteristic angles within beta-strands were correlated to the nature of the side chains. The twists were computed from the atomic coordinates of five consecutive amino acids’ alpha carbons from single beta-strand sequences. Conditions on the angles for twists to be mainly left-handed are given together with the frequency of occurrence for these non-standard geometrical properties within protein beta-strands. Applications in protein structure prediction and CASP challenges in particular are envisioned by making use of the probabilities of occurrence in protein structures of angle value ranges for given amino acids.

KEYWORDS

Beta-Sheet; Protein Data Bank; Protein Backbone; Protein Structure; Model Quality Assessment; CASP

Share and Cite:

Caudron, B. and Jestin, J. (2014) Geometrical criteria for left-handed twists within protein beta-strands. Journal of Biophysical Chemistry, 5, 5-12. doi: 10.4236/jbpc.2014.51002.

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