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PMID: 22505268 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Validation Study

Implementing an X-ray validation pipeline for the Protein Data Bank.

Acta crystallographica. Section D, Biological crystallography ·Vol. 68 ·No. Pt 4 ·2012-04-00 ·Pages 478-83

Gore S, Velankar S, Kleywegt GJ

Abstract

There is an increasing realisation that the quality of the biomacromolecular structures deposited in the Protein Data Bank (PDB) archive needs to be assessed critically using established and powerful validation methods. The Worldwide Protein Data Bank (wwPDB) organization has convened several Validation Task Forces (VTFs) to advise on the methods and standards that should be used to validate all of the entries already in the PDB as well as all structures that will be deposited in the future. The recommendations of the X-ray VTF are currently being implemented in a software pipeline. Here, ongoing work on this pipeline is briefly described as well as ways in which validation-related information could be presented to users of structural data.

MeSH Terms
Crystallography, X-Ray Databases, Protein Models, Molecular Protein Structure, Tertiary Proteins/analysis,chemistry
Chemicals
Proteins
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Gore Swanand
Protein Data Bank in Europe (PDBe), EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, England.
Velankar Sameer
Kleywegt Gerard J
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Article Info
Journal
Acta crystallographica. Section D, Biological crystallography
Abbr.
Acta Crystallogr D Biol Crystallogr
ISSN
1399-0047
DOI
10.1107/S0907444911050359
Published
2012-04-00
Epub
2012-00-16
Pages
478-83
Language
English
Region
United States
NLM ID
9305878
PMCID
PMC3322607
Subset
IM
Grants
Wellcome Trust · 088944 · United Kingdom
External Links
PubMed source DOI: 10.1107/S0907444911050359 PMC Full Text View journal details
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