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Binding Energy Distribution Analysis Method (BEDAM): Hamiltonian replica exchange with torsional flattening for binding mode prediction and binding free energy estimation

Molecular dynamics modeling of complex biological systems is limited by finite simulation time. The simulations are often trapped close to local energy minima separated by high energy barriers. Here, we introduce Hamiltonian replica exchange (H-REMD) with torsional flattening in the Binding Energy D...

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Détails bibliographiques
Publié dans:J Chem Theory Comput
Auteurs principaux: Mentes, Ahmet, Deng, Nan-Jie, Vijayan, R. S. K., Xia, Junchao, Gallicchio, Emilio, Levy, Ronald M.
Format: Artigo
Langue:Inglês
Publié: 2016
Sujets:
Accès en ligne:https://ncbi.nlm.nih.gov/pmc/articles/PMC4862910/
https://ncbi.nlm.nih.gov/pubmed/27070865
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1021/acs.jctc.6b00134
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