388 new PDB entries have been released on 2026-01-28. 248335 entries are now available in total. Please refer to PDB / EMDB latest information for other updates.

EMDB released entry growth by year The wwPDB has reached a historic milestone, releasing 10,000 EMDB entries in a single year. The rate of release of 3DEM data to the public continues at an extraordinary pace, for the first time the wwPDB has seen ...

Depositions are automatically distributed to wwPDB deposition centers geographically. Data processing responsibilities are shared among wwPDB partner sites: - RCSB PDB is responsible for PDB and EMDB data coming from the Americas - PDBe and EMDB are ...

A snapshot of the PDB Core archive (https://files.wwpdb.org, https://s3.rcsb.org) as of January 01, 2026 has been added to https://s3snapshots.rcsb.org (AWS), snapshots.rcsb.org (rsync -rlpy -a -v --delete snapshots.rcsb.org:: .), and ftp://snapshots.pdbj. ...

Number of PDB depositions per year wwPDB is proud to announce that it surpassed the milestone of 20,000 new structure depositions this year. This achievement reflects the impact of rapid advances in cryo-electron microscopy, high-throughput ...

Congratulations to biocurator Dr. Deborah Harrus on processing over 10,000 PDB depositions. She is the first biocurator at PDBe to reach this milestone and the eighth within the wwPDB. Dr. Harrus joined the Protein Data Bank in Europe (PDBe) in 2019, ...

Starting early January 2026, PDBj will biocurate data depositions coming from Oceania in addition to depositions from other regions in Asia except China. PDBc, an Associate Member of the wwPDB, is responsible for biocurating depositions from China. ...

Metal-protein interaction annotation and metal coordination annotation and assessment Metalloproteins represent ~30% of the PDB archive. Ensuring FAIR data practices for metalloproteins is highly impactful. wwPDB will update existing polyatomic metal ...

The wwPDB is continuing to improve and expand our validation offerings with a new addition to the wwPDB PDF validation reports. Building on the success of the coordinate‑model percentile sliders, which help depositors, reviewers, and archive users assess ...

wwPDB strongly encourages all users to adopt the extended PDB ID format and transition to PDBx/mmCIF file format as soon as possible. This includes making changes to software; referring to structures by the full 12-character ID in all communications; and ...

The EMDB archive is experiencing near-exponential growth. To support this rapid expansion, the wwPDB has been working to prepare our systems for the future and ensure seamless deposition, validation, and dissemination of data in the years ahead. As part ...

Snapshots of the PDB Core archive (https://files.rcsb.org) can be downloaded via HTTPS, SYNC, RSYNC, or FTP. At RCSB PDB, AWS SYNC is supported instead of RSYNC. Snapshots have been archived annually since 2005 to provide readily identifiable data sets ...

Now, we have released the PDBj Newsletter Vol.25.

The wwPDB Foundation made an award for an outstanding student presentation at the 2025 Biophysical Society Meeting (February 15-19, Los Angeles, CA). Hsiang-Ling Huang Mechanisms of dysferlin-mediated membrane repair in health and disease Hsiang- ...

New version of PDB-IHM validation reports now include assessments of crosslinking mass spectrometry-based structure models We are pleased to announce the release of updated validation reports (version 2) for structures determined using integrative and ...

Please take this brief survey about the PDBx/mmCIF User Guide to help us gain insights into the Guide’s usage and identify areas for future improvement. Benefits of the PDBx/mmCIF ecosystem Your feedback is highly valued. Respondents can enter ...

Integrative structures are available at wwPDB.org and the PDB archive Structures of many large macromolecular assemblies are now being determined using integrative approaches, wherein information derived from multiple experimental and computational ...

New archive snapshots are available. A snapshot of the PDB Core archive (https://files.wwpdb.org/, https://s3.rcsb.org) as of January 1, 2025 has been added to https://s3snapshots.rcsb.org/, snapshots.rcsb.org (rsync -rlpy -a -v --delete snapshots. ...

PDB Chemical Component Dictionary (CCD) files with ideal geometries are now provided in SDF/MOL format at the PDB archive. Users can download individual CCD files in SDF/MOL format from the PDB archive at https://files.wwpdb.org/pub/pdb/refdata/chem_comp/. ...

A new portal site that connects Japanese gene mutation information published in PDBj with protein sequences and structures (e.g., UniProt ID: P20813) The Protein Data Bank Japan (PDBj, head Prof. Genji Kurisu)*1, operated by the Institute for Protein ...

The FTP protocol for file downloads has been losing popularity over the years in favor of HTTP/S. There are many advantages of HTTP/S including speed, statelessness, security (HTTPS), and better support. Importantly during the past 2-3 years the main web ...

We will hold a luncheon seminar at APBJC 2024 (1st Asia & Pacific Bioinformatics Joint Conference ~JSBi, GIW, InCoB, APBC, and ISCB-Asia~) on Thursday, October 24, 2024. We look forward to seeing you there. Date 24th October 2024 (Thu) 12:30 - 13:30 ( ...

The Royal Swedish Academy of Sciences has announced that they will award David Baker, Demis Hassabis, and John Jumper the Nobel Prize in Chemistry 2024 for computational protein design and protein structure prediction. More than 60,000 PDB depositors ...

Preprint publications will trigger wwPDB data archive release The wwPDB releases entries under the following circumstances: - upon author’s request - upon publication - at the end of the hold period defined during submission (up to 1 year) if no ...

This is the PDBj portal page for UniProt entries linking them with the structures in the PDB archive. The portal page provides an overview of the available PDB structures for a PDB entry, ranking them based on resolution and coverage. The UniProt ...