A few words on obsoleted entries and validation reports: OBSOLETE ENTRIES ---------------- Obsolete entries remain available to the public through the PDB ftp archive at ftp://ftp.wwpdb.org/pub/pdb/data/structures/obsolete/.
For example, for entry 1F83, you can access the coordinate file at ftp://ftp.wwpdb.org/pub/pdb/data/structures/obsolete/pdb/f8/pdb1f83.ent.gz and the structure factors at ftp://ftp.wwpdb.org/pub/pdb/data/structures/obsolete/structure_factors/f8/r1f83sf.ent.gz. If there is a superceding entry, many websites that serve PDB data will automatically redirect you to the superceding entry. In the rare cases when a journal retracts a publication, and the reason(s) for retraction were such that the associated PDB entry needs to be made obsolete, wwPDB will obsolete the entry. The retraction will be listed as the citation in the obsoleted file. The entries described in recently retracted publications (3O8K and 2QNS) will be subjected to this process. This is a recent change to wwPDB policy - historically, the reasons for making PDB entries obsolete (without superceding them) have not been captured. Current wwPDB policy describing the process is at http://www.wwpdb.org/policy.html#toc_changes VALIDATION REPORTS ------------------ The wwPDB encourages authors of structure papers to submit, and journal editors and referees to request, PDB Validation Reports as part of the manuscript submission and review process. As part of structure annotation, wwPDB deposition sites produce reports that include the results of geometric and experimental data checking. These reports provide a basic assessment of structure quality while keeping the coordinate file confidential. The validation reports will continue to be developed and improved as we receive recommendations from the wwPDB Validation Task Forces (VTFs) for X-ray, NMR and 3DEM and as we further develop our data deposition and processing procedures. The X-ray VTF recommendations will be published soon, with white papers by the NMR and EM VTFs to follow. PDB validation reports are already required by the International Union of Crystallography (IUCr) journals as part of their submission process (http://journals.iucr.org/d/services/submitinstructions.html#supplement) and are described in an editorial published in Nature Structural & Molecular Biology (http://www.nature.com/nsmb/journal/v17/n8/full/nsmb0810-917.html). Christine Zardecki for the wwPDB ------------------------------------------------------------------------------------------ PDB 40: Celebrate four decades of innovation in structural biology Oct 28-30, 2011 at Cold Spring Harbor Laboratory http://meetings.cshl.edu/meetings/pdb40.shtml Like the Worldwide Protein Data Bank on Facebook: http://on.fb.me/l3m9qT
