Protein Data Bank

🚨New Syntax for PDB DOIs for Entries Released After July 21, 2027 • New entries DOI will use extended ID (e.g. 10.2210/pdb_1000axyz/pdb) • Older entries keep 4-character DOI format (e.g. 10.2210/pdb1abc/pdb) 🔗#69ebcf461103c56d3f44415a" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year… #PDB

🚨July 21, 2027: PDB Beta Archive replaces current PDB archive. Key updates: • Extended IDs (1ABC → pdb_00001abc). • Only 12-char IDs issued. • Data in PDBx/mmCIF & PDBML only. All PDB users must transition to extended IDs and PDBx/mmCIF. 🔗#69ebcdca1103c56d3f444159" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year… #PDB

🚨Updated Validation Reports for Released PDB and EMDB Entries. Key highlights: • Recalculated percentiles for all entries. • New stats reflecting PDB archive as of Dec 31, 2025. • Added Q-score percentiles. • Improved ligand validation. 🔗#69e128796c4fcd38cafe946d" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year… #PDB

@mitsenkov, Senior Bioinformatician at AlphaFold DB, will be giving a keynote talk for @EHA_Hematology Computational Biology Training in Hematology programme, speaking with haematologists about structural biology and practical AlphaFold DB use-cases. #AlphaFold #EHA2026

An honour to participate with works from the PDBArt project in the exhibition "Habitar lo Invisible" (Inhabiting the Invisible), organised by BioScience-App in Ayacucho, Peru. ⬇️ more ⬇️ facebook.com/story.php?stor… facebook.com/reel/147079457… #science #artㅤ

🚨 Job alert 🚨: Every published #cryoEM structure is paired with access to its underlying data. Want to help make that possible? Join the OneDep biocuration team at EBI as an EMDB biocurator: embl.wd103.myworkdayjobs.com/en-US/EMBL/job…

Custom dictionary support is available in the PDBe mmCIF validator: VS Code: set dictionary path in settings Python script: pass dictionary path via CLI #mmCIF #PDB #Bioinformatics #StructuralBiology

𝗣𝗗𝗕𝗲 𝗘𝗻𝘁𝗿𝘆 𝗣𝗮𝗴𝗲𝘀 just got better! 🚀 🔹 New tab with links to partner and related databases 🔹 PDBe extended codes now displayed 🔹 More data fields requested by the community Explore an entry: pdbe.org/12ca We need your feedback! More updates are coming!

Huge thanks to @nextflowio & @SeqeraLabs for fantastic hackathons to support reproducible workflows! Big shout‑out to volunteers @naran43536 (from @sangerinstitute), @vagkaratzas & Martin Beracochea (from EMBL-EBI) for hands‑on learning with the PDBe team.✨💖 #opensource

𝗣𝗗𝗕𝗲 𝗺𝗺𝗖𝗜𝗙 𝗩𝗮𝗹𝗶𝗱𝗮𝘁𝗼𝗿: validate your mmCIF files against PDBx/mmCIF dictionary ✅ Real-time check ✅ Metadata completeness indicator pip install pdbe-mmcif-validator or install VS code extension GitHub - PDBeurope/mmcif-validator: github.com/PDBeurope/mmci…

Register for PDB Workshops at IUCr2026: Pre-meeting workshop: Enhancing PDB Deposition and Validation Practices 🗓️𝐀𝐮𝐠𝐮𝐬𝐭 𝟏𝟎, 𝟐𝟎𝟐𝟔 Enabling PDB Deposition of Integrative/Hybrid Methods Structures. 🗓️𝐀𝐮𝐠𝐮𝐬𝐭 𝟏𝟏, 𝟐𝟎𝟐𝟔 🔗#69b2b76a8557ae0f261bc715" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year…

The Protein Data Bank (#PDB) has reached a new milestone: 250,441 entries in the archive, a record since its founding in 1971, all thanks to the efforts and contributions of the structural biology community. ⬇️ more ⬇️ #69a97c058557ae0f261bc710" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year… #StructuralBiology

We’re running a survey to learn your experience with AlphaFold DB search results and filters. Take 5-minutes to share your experience with AlphaFold DB search and have a say in upcoming improvements. Fill in the survey forms.gle/K7RotPrD9ZPZ3f… #AlphaFold #StructuralBiology

The AlphaFold Database, jointly developed with @GoogleDeepMind, now contains datasets from specialist communities. This includes rich datasets for microbes, viruses & parasites associated with tropical diseases. ebi.ac.uk/about/news/upd…

By 2028, all 4-character PDB IDs will be exhausted. After that, all new entries will receive extended IDs: 12 characters total, formatted as pdb_ + 8 alphanumeric characters (pdb_1000axyz) Test it from PDB Beta Archive Read more: #698a36067e4af405aeeb5b24" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year…

We’re running a survey to learn your experience with AlphaFold DB search results and filters. Take 5-minutes to share your experience with AlphaFold DB search and have a say in upcoming improvements. Fill in the survey forms.gle/K7RotPrD9ZPZ3f… #AlphaFold #StructuralBiology

A gentle reminder to update your APIs

We're hiring a 𝐓𝐫𝐚𝐢𝐧𝐢𝐧𝐠 𝐒𝐩𝐞𝐜𝐢𝐚𝐥𝐢𝐬𝐭 for 𝐀𝐥𝐩𝐡𝐚𝐅𝐨𝐥𝐝 𝐃𝐚𝐭𝐚𝐛𝐚𝐬𝐞 (AFDB)! Join our team in Hinxton to develop training content and drive global engagement with AFDB. Full-time, hybrid role.  Apply now! embl.wd103.myworkdayjobs.com/en-US/EMBL/det… #AFDB #Jobs #emblebi

The wwPDB just hit a major milestone: 𝟏𝟎,𝟎𝟎𝟎 𝐄𝐌𝐃𝐁 𝐞𝐧𝐭𝐫𝐢𝐞𝐬 𝐫𝐞𝐥𝐞𝐚𝐬𝐞𝐝 𝐢𝐧 𝐚 𝐬𝐢𝐧𝐠𝐥𝐞 𝐲𝐞𝐚𝐫. The entire EMDB archive 𝐡𝐚𝐬 𝐬𝐮𝐫𝐩𝐚𝐬𝐬𝐞𝐝 𝟓𝟎,𝟎𝟎𝟎 entries . Huge credit to the community driving 3DEM forward! #6968e2131c215c75ee8f5482" target="_blank" rel="nofollow noopener">wwpdb.org/news/news?year… #3DEM

Find out how to answer scientific questions about #ligands in the #PDB directly from your web browser. Watch the latest talk by Ibrahim Roshan at the CCP4 Study Weekend. 🎥 Watch the talk: ukri.zoom.us/rec/play/U_JY4… #PDBeKB #CCP4 #StructuralBiology