A molecular dynamics study based post facto free energy analysis of the binding of bovine angiogenin with UMP and CMP ligands


Autoria(s): Madhusudhan, MS; Vishveshwara, S; Das, A; Kalra, P; Jayaram, B
Data(s)

01/02/2001

Resumo

Angiogenin is a protein belonging to the superfamily of RNase A. The RNase activity of this protein is essential for its angiogenic activity. Although members of the RNase A family carry out RNase activity, they differ markedly in their strength and specificity. In this paper, we address the problem of higher specificity of angiogenin towards cytosine against uracil in the first base binding position. We have carried out extensive nano-second level molecular dynamics(MD) computer simulations on the native bovine angiogenin and on the CMP and UMP complexes of this protein in aqueous medium with explicit molecular solvent. The structures thus generated were subjected to a rigorous free energy component analysis to arrive at a plausible molecular thermodynamic explanation for the substrate specificity of angiogenin.

Formato

application/pdf

Identificador

http://eprints.iisc.ernet.in/39483/1/A_molecular_dy.pdf

Madhusudhan, MS and Vishveshwara, S and Das, A and Kalra, P and Jayaram, B (2001) A molecular dynamics study based post facto free energy analysis of the binding of bovine angiogenin with UMP and CMP ligands. In: Indian Journal of Biochemistry & Biophysics, 38 (1-2). pp. 27-33.

Publicador

National Institute of Science Communication and Information Resources.

Relação

http://www.niscair.res.in/ScienceCommunication/ResearchJournals/rejour/ijbb/ijbb0.asp

http://eprints.iisc.ernet.in/39483/

Palavras-Chave #Molecular Biophysics Unit
Tipo

Journal Article

PeerReviewed