title   
  

Molecular recognition mechanisms of calmodulin examined by perturbation-response scanning

Aykut, Ayşe Özlem and Atılgan, Ali Rana and Atılgan, Canan (2011) Molecular recognition mechanisms of calmodulin examined by perturbation-response scanning. In: 2010 MRS Fall Meeting, Boston, Massachusetts

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Official URL: http://dx.doi.org/10.1557/opl.2011.568

Abstract

We analyze the apo and holo calmodulin (CaM) structures by sequentially inserting a perturbation on every residue of the protein, and monitoring the linear response. Residue crosscorrelation matrices obtained from 20 ns long molecular dynamics simulation of the apo-form are used as the kernel in the linear response. We determine two residues whose perturbation equivalently yields the experimentally determined displacement profiles of CaM, relevant to the binding of the trifluoperazine (TFP) ligand. They reside on structurally equivalent positions on the N- and C-terminus lobes of CaM, and are not in direct contact with the binding region. The direction of the perturbation that must be inserted on these residues is an important factor in recovering the conformational change, implying that highly selective binding must occur near these sites to invoke the necessary conformational change.

Item Type:Papers in Conference Proceedings
Uncontrolled Keywords:biological; self-assembly; structural
Subjects:Q Science > Q Science (General)
ID Code:17687
Deposited By:Canan Atılgan
Deposited On:05 Jan 2012 21:38
Last Modified:05 Jan 2012 21:38

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