@mitsenkov.bsky.social , Senior Bioinformatician at AlphaFold DB, will be giving a keynote talk for EHA’s 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 ⬇️
www.facebook.com/story.php?st...
www.facebook.com/reel/1470794...
#science #art
🚨 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/j...
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 @nextflow.io & @seqera.io for fantastic hackathons to support reproducible workflows! Big shout‑out to volunteers Yunjia Zhang (from Sanger Institute), @vagkaratzas.bsky.social & @mberacochea.bsky.social (from @ebi.embl.org) 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
install VS code extension: marketplace.visualstudio.com/items?itemNa...
GitHub - PDBeurope/mmcif-validator: github.com/PDBeurope/mm...
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
🔗www.wwpdb.org/news/news
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 ⬇️
www.wwpdb.org/news/news?ye...
#StructuralBiology
We’re running a survey to learn about 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/K7RotPrD9ZPZ...
#AlphaFold #Bioinformatics #StructuralBiology
The AlphaFold Database, jointly developed with Google DeepMind, now contains datasets from specialist communities.
This includes rich datasets for microbes, viruses & parasites associated with tropical diseases.
Explore the new datasets in the AlphaFold Database.
www.ebi.ac.uk/about/news/u...
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: www.wwpdb.org/news/news?ye...
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/K7RotPrD9ZPZ...
#AlphaFold #Bioinformatics #StructuralBiology
We're hiring a 𝐓𝐫𝐚𝐢𝐧𝐢𝐧𝐠 𝐒𝐩𝐞𝐜𝐢𝐚𝐥𝐢𝐬𝐭 for 𝐀𝐥𝐩𝐡𝐚𝐅𝐨𝐥𝐝 𝐃𝐚𝐭𝐚𝐛𝐚𝐬𝐞 (AFDB)! Join our team to develop training content, create workshops, and drive global engagement with AlphaFold and AFDB.
Full-time, hybrid role.
Apply now! embl.wd103.myworkdayjobs.com/en-US/EMBL/d...
#AFDB #Jobs #emblebi
The wwPDB just hit a major milestone: 𝟏𝟎,𝟎𝟎𝟎 𝐄𝐌𝐃𝐁 𝐞𝐧𝐭𝐫𝐢𝐞𝐬 𝐫𝐞𝐥𝐞𝐚𝐬𝐞𝐝 𝐢𝐧 𝐚 𝐬𝐢𝐧𝐠𝐥𝐞 𝐲𝐞𝐚𝐫. To put this in context, the entire EMDB reached 10,000 entries total in 2019 — now the archive 𝐡𝐚𝐬 𝐬𝐮𝐫𝐩𝐚𝐬𝐬𝐞𝐝 𝟓𝟎,𝟎𝟎𝟎. Huge credit to the community driving 3DEM forward!
www.wwpdb.org/news/news?ye...
#3DEM #EMDB
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 2026.
🎥 Watch the talk:
ukri.zoom.us/rec/play/U_J...
#PDBeKB #CCP4 #StructuralBiology
Join us at the IUCr 2026 Congress
📍 Calgary, Alberta (Canada)
📅 August 11–18, 2026
👉 Register now and sign up for a free half-day, hands-on wwPDB workshop:
event.fourwaves.com/iucr-2026/re...
Know more: www.wwpdb.org/news/news?ye...
#IUCr2026 #Crystallography #wwPDB
Latest time-stamped copies of the PDB and EMDB archives are now available.
Read more: www.wwpdb.org/news/news?ye...
This is just the beginning. Planned developments include clustering of conformational states and a new interface tab to support deeper analysis of macromolecular interactions.
🔗 Explore the SARS CoV 2 spike complex via PDB entry 9CXE
www.ebi.ac.uk/pdbe/pdbe-kb...
PDBe-KB Complexes aggregates equivalent assemblies from across the PDB into unified complex level records. This enables systematic comparison of composition, stoichiometry, symmetry, ligands, and assembly properties across experiments and conditions.
PDBe-KB Complexes has been published in
@jmolbiol.bsky.social at the start of the new year, introducing a complex centric view of experimentally determined macromolecular assemblies in the PDB.
📄 Read the paper: sciencedirect.com/science/arti...
#PDBeKB #MacromolecularComplex #Bioinformatics
The wreath was created using PDB entry 8PDN, with the red bow from EMD-35864. Snowflakes were created using PDB entries 6MQA, 7NI2, 8KG2 and EMDB maps EMD-9861, EMD-15602, EMD-23388, EMD-30158, EMD-32016, EMD-35178, EMD-44639, EMD-50640. Yellow stars were created using PDB entries 6HIF and 8OZL.
🎄✨ Season’s Greetings from PDBe ✨🎄
The PDBe wishes you a very Merry Christmas and a Happy New Year. We are delighted to share our jointly designed EMDB/PDBe Christmas card with you. It has been a busy year, and we look forward to seeing you in the New Year.
Milestone reached: Over 20,000 new structures deposited to the PDB in 2025!
This reflects advances in cryo-EM, high-throughput crystallography, and AI-driven modelling, supported by expert wwPDB biocuration and open data sharing.
Read more: wwpdb.org/news/news?ye...
🆕 New to the pages?
Try the interactive tour or the PDBeChem training module:
www.ebi.ac.uk/training/onl...
💬 Share your feedback:
docs.google.com/forms/d/e/1F...
Looking for ligand–protein interactions?
See which proteins a ligand binds, the key amino acids involved, and the functional role of the ligand—directly on the page.
🔬 What can you find on the Ligand pages?
• Standardised identifiers
• Physicochemical properties
• Bound structures
• Protein interactions
• Similar ligands and stereoisomers
• External resource links
🚀 Update Alert
The new PDBe-KB Ligand pages are live with a cleaner layout, intuitive tabs, and a brand-new onboarding tour to help you get started.
Explore here 👉 pdbe.org/chem/STI
The latest update to the AlphaFold Database (AFDB) is now published in NAR.
The release aligns AFDB with UniProt 2025_03 and introduces a redesigned entry page with integrated annotations, domains, summaries, and a 3D viewer.
📄 Read more: academic.oup.com/nar/advance-...
We’re still improving — thanks to you!
Our latest PDBe entry page update adds smoother browsing, better 3D selections, and direct links to page sections.
Examples:
Macromolecule:
www.ebi.ac.uk/pdbe/entry/p...
Ligand:
www.ebi.ac.uk/pdbe/entry/p...
Complex:
www.ebi.ac.uk/pdbe/entry/p...