RCSB Protein Data Bank (RCSB PDB) enables breakthroughs in science and education by providing access and tools for exploration, visualization, and analysis of:
Experimentally-determined 3D structures from the Protein Data Bank (PDB) archive
Computed Structure Models (CSM) from AlphaFold DB and ModelArchive
These data can be explored in context of external annotations providing a structural view of biology.
January Molecule of the Month
BRD3-BD1 in complex with RaPID linear peptide 2xAcK.4xE (diAcK.4xE)
Crystal structure of the Shr Hemoglobin Interacting Domain 2 (HID2) in complex with Hemoglobin
BRD3-BD1 in complex with RaPID linear peptide 3xAcK.1 (triAcK.1)
Autotaxin in complex with hybrid compound ziritaxestat (GLPG1690)
CryoEM structure of human alpha-synuclein A53T fibril
Cryo-EM structure of Mycobacterium tuberculosis irtAB in complex with ADP
structure of RutB
2 ATP-bound V1EG of V/A-ATPase from Thermus thermophilus
Cryo-EM structure of the E.coli 70S ribosome in complex with the antibiotic Myxovalargin B.
Deactive state CI from Q1-NADH dataset, Subclass 5
Features & Highlights
Structure Predictors: Use ModelCIF for Computed Structure Models
ModelCIF is an extension of PDBx/mmCIF data representation
PDB Reaches a New Milestone: 200,000+ Entries
With this week’s update, the PDB contains more than 200,000 entries
Time-stamped Copies of PDB and EMDB Archives
A snapshot of the PDB Core archive (ftp://ftp.wwpdb.org) as of January 2, 2023 has been added to ftp://snapshots.wwpdb.org, https://s3snapshots.rcsb.org (AWS), and ftp://snapshots.pdbj.org.
Find Similarly-Shaped Structures with Advanced Search
Enter a PDB ID or a URL address in the Structure Similarity option to find proteins with similar protein shapes
Explore Multiple Sequence Alignments in 1D and 3D
Select proteins and/or residue regions to view multiple 3D structures aligned in Mol*
Ligand Expo: Scheduled downtime and request for feedback
Ligand Expo will be down in January 2022. Please take this survey to help us understand which features are used the most.
Deprecation of FTP File Download Protocol in the PDB Archive
wwPDB plans to deprecate FTP download protocol on November 1st 2024
Register Now for Virtual Crash Course: Using KBase to access PDB Structures and CSMs
Learn about the protein structure-related tools, visualizations, and workflows that have been integrated into KBase on Thursday November 10, 2022
Remembering John Westbrook on the Anniversary of His Passing
John D. Westbrook Jr. (1957-2021) was incredibly beloved and respected by his colleagues at Rutgers and throughout the world, known for his dry wit and endless enthusiasm for thinking about all aspects of data and data management.
Undergrads/Grads: Apply to the Molecule of the Month Boot Camp (January 2023)
Limited spaces available for the Science Communication in Biology and Medicine Virtual Boot Camp: January 9-13, 2023. Applications due October 31, 2022.
See new feature archive
- Read about the RCSB PDB and other molecular biology databases in the annual Database Issue of Nucleic Acids Research» 01/24/2023
- This issue highlights the 1D-3D Group Alignment Viewer; New Video: How Neurons Communicate; and more. In the Education Corner, learn about Fundamentals of Biochemistry: A new online biochemistry textbook with interactive molecular and mathematical modeling by Henry Jakubowski» 01/19/2023
- RISE at Rutgers is a nationally acclaimed summer research program for outstanding undergraduates from diverse backgrounds. Applications are open now.» 01/12/2023
- Download our new calendar that highlights illustrations from the David Goodsell SciArt Digital Archive» 12/31/2022
- Best wishes for a happy new year» 12/22/2022
- December 21 is National Crossword Day. Try your hand at a Molecule of the Month-related crossword puzzle.» 12/20/2022
- PDB-101's Guide helps non-experts navigate through the PDB. A new chapter highlights the Hierarchical Structure of Proteins.» 12/15/2022
- The Global Biodata Coalition (GBC) today announced that the Protein Data Bank (PDB) archive is included in the first list of Global Core Biodata Resources (GCBRs)—a collection of 37 resources whose long term funding and sustainability is critical to life science and biomedical research worldwide.» 12/15/2022
- Visit PDB-101 to learn about the molecular mechanisms by which cancerous mutations cause uncontrolled cell growth» 12/13/2022
Molecule of the Month
Quarterly News (see archive)
This issue highlights the 1D-3D Group Alignment Viewer; New Video: How Neurons Communicate; and more. Winter 2023 Issue