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Comparative analysis of rigidity across protein families
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Wells, Stephen A., Jiménez Roldán, J. E. (José Emilio) and Roemer, Rudolf A. (2009) Comparative analysis of rigidity across protein families. Physical Biology, Vol.6 (No.4). Article 6005. doi:10.1088/1478-3975/6/4/046005 ISSN 1478-3975.
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Official URL: http://dx.doi.org/10.1088/1478-3975/6/4/046005
Abstract
We present a comparative study in which 'pebble game' rigidity analysis is applied to multiple protein crystal structures, for each of six different protein families. We find that the main-chain rigidity of a protein structure at a given hydrogen bond energy cutoff is quite sensitive to small structural variations, and conclude that the hydrogen bond constraints in rigidity analysis should be chosen so as to form and test specific hypotheses about the rigidity of a particular protein. Our comparative approach highlights two different characteristic patterns ('sudden' or 'gradual') for protein rigidity loss as constraints are removed, in line with recent results on the rigidity transitions of glassy networks.
Item Type: | Journal Article | ||||
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Subjects: | Q Science > QH Natural history > QH301 Biology | ||||
Divisions: | Faculty of Science, Engineering and Medicine > Science > Centre for Scientific Computing | ||||
Library of Congress Subject Headings (LCSH): | Biomolecules -- Research, Conformational analysis, Membranes (Biology) -- Research, Proteins -- Research, Molecule-molecule collisions | ||||
Journal or Publication Title: | Physical Biology | ||||
Publisher: | Institute of Physics Publishing Ltd. | ||||
ISSN: | 1478-3975 | ||||
Official Date: | December 2009 | ||||
Dates: |
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Volume: | Vol.6 | ||||
Number: | No.4 | ||||
Page Range: | Article 6005 | ||||
DOI: | 10.1088/1478-3975/6/4/046005 | ||||
Status: | Peer Reviewed | ||||
Access rights to Published version: | Open Access (Creative Commons) | ||||
Funder: | Engineering and Physical Sciences Research Council (EPSRC), Biotechnology and Biological Sciences Research Council (Great Britain) (BBSRC), Leverhulme Trust (LT) | ||||
Grant number: | F/00 215/AH (LT), EP/C007042/1 (EPSRC) |
Data sourced from Thomson Reuters' Web of Knowledge
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