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Bioinformatics. 2006 Jul 1;22(13):1660-1. Epub 2006 Apr 27.

Map2mod--a server for evaluation of crystallographic models and their agreement with electron density maps.

Author information

1
Department of Molecular Physiology and Biological Physics, University of Virginia Charlottesville, USA. olga,wladek@iwonka.med.virginia.edu

Abstract

Here we report on recent developments of the map2mod server. It has been designed for validation of protein models created by X-ray data interpretation. It can also be used during the refinement process since it is able to indicate problem regions in the model. Apart from evaluation of model quality, it has an option to remove atoms of side chains, which are not consistent with the maps as well as improperly placed water molecules. There are two additional options: checking the B-factors of atoms in the provided model and comparison of R and R(free) values obtained as the result of refinement with the averages characteristic for the data resolution shell.

PMID:
16644793
DOI:
10.1093/bioinformatics/btl152
[Indexed for MEDLINE]

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