Predicting free energy changes using structural ensembles

TitlePredicting free energy changes using structural ensembles
Publication TypeJournal Article
Year of Publication2009
AuthorsBenedix A., Becker C.M, de Groot B.L, Caflisch A., Böckmann R.A
JournalNat Methods
Volume6
Issue1
Pagination3-4
Date Published2009 Jan
Type of ArticleResearch Article
ISSN1548-7105
KeywordsMutation, Protein Binding, Protein Folding, Proteins, Thermodynamics
Abstract

Reliable and fast computation of protein free energy is crucial for protein-structure analysis, structure-based protein design and protein docking. Rigorous treatments based on physical effective energy functions involve computationally expensive methods such as free energy perturbation, which are time–consuming and are thus incompatible with the need to perform extensive scans. Commonly used fast methods, in turn, involve empirically derived scoring functions and usually do not include protein flexibility or are based on statistical potentials and are therefore highly dependent on the availability of case-dependent experimental training data. Hence, such methods are inherently limited in accuracy and applicability.

(In lieu of a true abstract, this is the first paragraph.)

DOI10.1038/nmeth0109-3
pubindex

0106

Alternate JournalNat. Methods
PubMed ID19116609
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