Dear all,
A new publication describes thePDB Beta Archive
<https://www.wwpdb.org/ftp/pdb-beta-ftp-sites>which incorporates the new
updates, with the goal of supporting PDB users as they transition to the
extended PDB ID and PDBx/mmCIF format. On July 21, 2027, the PDB Beta
Archive will replace the current PDB Archive when 12-character PDB IDs
are issued exclusively. Users are strongly encouraged to adapt to these
changes in PDB data layout and content as soon as possible.
This PDB Beta Archive contains PDB entries in PDBx/mmCIF and PDBML
formats, with extended PDB IDs in the datablock name. It is organized on
an entry-level basis (e.g. all associated experimental and validation
files for a particular entry are contained within the same directory)
with extended PDB IDs used in the file and directory naming.
The wwPDB weekly update process was modified to create the PDB Beta
Archive alongside the current PDB Archive. Both PDB Beta and the current
main archives are updated in parallel each week and made available every
Wednesday at 00:00 UTC.
Protein Data Bank (PDB) Archive: a new architecture (beta) for
scalable, PDBx/mmCIF-based data distribution
Zukang Feng, Balakumaran Balasubramaniyan, Gert-Jan Bekker, Jose M.
Duarte, Vladimir Guranovic, Jeremy Henry, Sreenath S. Nair, Ezra
Peisach, Dennis W. Piehl, Aditya Pingale, James Smith, Brinda
Vallat, Reiko Yamashita, Arthur Zalevsky, Kyle Morris,Jeff Hoch,
Genji Kurisu, Sameer Velankar, Stephen K. Burleya, and Jasmine Y. Young
(2026)/Acta Cryst/D82: 982-989 doi:10.1107/S2059798326006194
<http://doi.org/10.1107/S2059798326006194>
Transition Resources
* PDB ID Extension FAQ
<https://www.wwpdb.org/documentation/pdb-id-extension-faq>
* PDB Beta Archive Overview: includes beta archive access, scripts,
shortlink URLs, and other resources
<https://www.wwpdb.org/ftp/pdb-beta-ftp-sites>
* PDBx/mmCIF software resources
<https://mmcif.wwpdb.org/docs/software-resources.html>
* Understanding PDBx/mmCIF format
<https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/beginner%E2%80%99s-guide-to-pdbx-mmcif>
* PDBx/mmCIF User Guide
<https://mmcif.wwpdb.org/docs/user-guide/guide.html>
* PDBx/mmCIF Dictionary <https://mmcif.wwpdb.org/>
* PDB -> PDBx/mmCIF correspondences
<https://mmcif.wwpdb.org/docs/pdb_to_pdbx_correspondences.html>
* An online PDBx/mmCIF Editor <https://pdbj.org/cif-editor/>
<https://www.wwpdb.org/news/news?year=2026#top>
Kind regards,
Deborah Harrus, on behalf of the wwPDB
--
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Deborah Harrus, Ph.D.
PDBe Archive Project Leader, Biocuration Lead
Protein Data Bank in Europe
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD UK
http://www.PDBe.org
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