A Structural View of Biology

This resource is powered by the Protein Data Bank archive - information about the 3D shapes of proteins, nucleic acids, and complex assemblies that helps students and researchers understand all aspects of biomedicine and agriculture, from protein synthesis to health and disease.

As a member of the wwPDB, the RCSB PDB curates and annotates PDB data.

The RCSB PDB builds upon the data by creating tools and resources for research and education in molecular biology, structural biology, computational biology, and beyond.

Deposition Preparation Tools

Data Extraction

  • pdb_extract : Extract and harvest data in PDBx/mmCIF format from structure determination programs
  • SF-Tool : Convert structure factor files among various formats

Small Molecules

  • Ligand Expo : Search the Chemical Component Dictionary for the IDs of released ligands

Data Format Conversion

  • PDBML2CIF : Convert PDBML-format data into PDBx/mmCIF-format
  • PointSuite : Generate symmetry records for macromolecular assemblies with point and helical symmetries
  • MAXIT : Translate data between file formats and more

Explore the PDB Archive

3D Structure: Jmol

The Jmol molecular viewer offers several options for display and analysis. Launch the viewer using the 3D View feature from any entry's Structure Summary or by entering an ID below. Learn more about Jmol.

  • Hemoglobin
    Jmol Thumbnail for Hemoglobin 4HHB

    PDB ID: 4HHB

  • Streptavidin
    Jmol Thumbnail for Streptavidin 1STP

    PDB ID: 1STP

  • Purine Nucleoside Phosphorylase
    Jmol Thumbnail for Purine Nucleoside Phosphorylase 4EAR

    PDB ID: 4EAR

Sequence & Structure Alignment

RCSB PDB's Comparison Tool calculates pairwise sequence (blast2seq, Needleman-Wunsch, and Smith-Waterman) and structure alignments (FATCAT, CE, Mammoth, TM-Align, TopMatch).

Comparisons can be made for any protein in the PDB archive and for customized or local files not in the PDB. Special features include support for both rigid-body and flexible alignments and detection of circular permutations.


Download: Structures

Use the JAVA Applet enabled form below to download the coordinates or experimental data for one or more structures. If you are using Mac OSX, this feature doesn't work on Chrome's 32bit browser. Please use a 64 bit browser like Firefox.

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Molecule of the Month

Articles describe the structure and function of a molecule, offer interactive views and discussion topics, and links to specialized pages to help explore specific example structures.

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Search by Unreleased & New Entries

The PDB is updated weekly on Wednesdays around 00:00 UTC (Coordinated Universal Time)

As of Tuesday Oct 14, 2014 at 5 PM PDT there are 104125 Structures.

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Protein Structure Initiative Featured System

Iron-Sulfur Cluster Biosynthesis

Iron-Sulfur Cluster Biosynthesis

Proteins are amazing molecular machines, but they occasionally need a little help. For instance, they often use specialized molecular tools when they need to move electrons from place to place. Iron-sulfur clusters are perfect for this task, since they form a unique delocalized system for storing an electron that may be tuned by the surrounding amino acids in a... Read More

Molecule of the Month

Methyl-coenzyme M Reductase

Methyl-coenzyme M Reductase

Methanogenic archaea produce about a billion tons of methane each year. Methanogens are tiny microbes similar to bacteria that colonize anaerobic environments such as the bottom of lakes and swamps or the gut of cows and humans. They feed on molecules like carbon dioxide, methanol and acetic acid that are produced by fermenting bacteria, and release methane as... Read More

Quarterly News ( see archive )

Fall 2014 Issue

This past July, Dr. Stephen K. Burley became the Director of the RCSB Protein Data Bank organization.

In addition, articles include Map Structures to Sequences with Protein Feature View; Inclusion of Large Structures in the PDB; Head Back to School with PDB-101; and more. » 10/07/14

Annual Reports

2013 Annual Report

Download the 2013 Annual Report (PDF) for an overview of data deposition, query, outreach, and education activities.

Annual Report Archive