MolDock: a new technique for high-accuracy molecular docking.

Abstract:

:In this article we introduce a molecular docking algorithm called MolDock. MolDock is based on a new heuristic search algorithm that combines differential evolution with a cavity prediction algorithm. The docking scoring function of MolDock is an extension of the piecewise linear potential (PLP) including new hydrogen bonding and electrostatic terms. To further improve docking accuracy, a re-ranking scoring function is introduced, which identifies the most promising docking solution from the solutions obtained by the docking algorithm. The docking accuracy of MolDock has been evaluated by docking flexible ligands to 77 protein targets. MolDock was able to identify the correct binding mode of 87% of the complexes. In comparison, the accuracy of Glide and Surflex is 82% and 75%, respectively. FlexX obtained 58% and GOLD 78% on subsets containing 76 and 55 cases, respectively.

journal_name

J Med Chem

authors

Thomsen R,Christensen MH

doi

10.1021/jm051197e

subject

Has Abstract

pub_date

2006-06-01 00:00:00

pages

3315-21

issue

11

eissn

0022-2623

issn

1520-4804

journal_volume

49

pub_type

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