(Posted on behalf of wwPDB)
The Worldwide Protein Data Bank (wwPDB; wwpdb.org) is pleased to direct PDB
depositors and users to the recommendations of the wwPDB X-ray Validation Task
Force (VTF) that were published in the journal Structure this week (2011, vol.
19: 1395-1412; http://www.cell.com/structure/abstract/S0969-2126(11)00285-1).
The wwPDB X-ray VTF was convened in 2008 to collect expert recommendations and
develop consensus on validation methods that should be applied to crystal
structures (models and data) in the PDB and to identify software applications
to perform these validation tasks. These recommendations are the basis of a
new validation suite that will be part of the new Common Tool for Deposition
and Annotation (D&A) that is currently being developed by the wwPDB partners.
The D&A tool and the X-ray validation pipeline will go into production by the
end of 2012 at all wwPDB deposition sites (RCSB PDB, PDBe, PDBj and BMRB).
From that moment in time on, depositors of X-ray crystal structures at the PDB
will be provided with a detailed validation report. Such reports can be
submitted to journals to accompany manuscripts describing new structures, and
several publishers are working towards making such reports mandatory. Once the
D&A tool is in production, the wwPDB partners also plan to provide the
validation pipeline as a server, allowing crystallographers to assess their
models before deposition and publication. Additional VTFs have been convened
for NMR (by wwPDB) and 3DEM (by EMDataBank).
The wwPDB greatly appreciates the efforts of the authors of the X-ray VTF
report: Randy J. Read, Paul D. Adams, W. Bryan Arendall III, Axel T. Brunger,
Paul Emsley, Robbie P. Joosten, Gerard J. Kleywegt, Eugene B. Krissinel,
Thomas Ltteke, Zbyszek Otwinowski, Anastassis Perrakis, Jane S. Richardson,
William H. Sheffler, Janet L. Smith, Ian J. Tickle, Gert Vriend and Peter H.
Zwart.
------------------------------------------------------------------------------
--Gerard
---
Gerard J. Kleywegt, PDBe, EMBL-EBI, Hinxton, UK
[email protected] ..................... pdbe.org
Secretary: Pauline Haslam [email protected]
