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Nucleic Acids Res. 2013 Jul;41(Web Server issue):W266-72. doi: 10.1093/nar/gkt460. Epub 2013 Jun 3.

SPACER: Server for predicting allosteric communication and effects of regulation.

Author information

1
Computational Biology Unit and Department of Informatics, University of Bergen, Bergen 5020, Norway.

Abstract

The SPACER server provides an interactive framework for exploring allosteric communication in proteins with different sizes, degrees of oligomerization and function. SPACER uses recently developed theoretical concepts based on the thermodynamic view of allostery. It proposes easily tractable and meaningful measures that allow users to analyze the effect of ligand binding on the intrinsic protein dynamics. The server shows potential allosteric sites and allows users to explore communication between the regulatory and functional sites. It is possible to explore, for instance, potential effector binding sites in a given structure as targets for allosteric drugs. As input, the server only requires a single structure. The server is freely available at http://allostery.bii.a-star.edu.sg/.

PMID:
23737445
PMCID:
PMC3692057
DOI:
10.1093/nar/gkt460
[Indexed for MEDLINE]
Free PMC Article

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