Protein Data Bank 3D Structural Biology Data

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Description

The "Protein Data Bank (PDB) archive" was established in 1971 as the first open-access digital data archive in biology. It is a collection of three-dimensional (3D) atomic-level structures of biological macromolecules (i.e., proteins, DNA, and RNA) and their complexes with one another and various small-molecule ligands (e.g., US FDA approved drugs, enzyme co-factors). For each PDB entry (unique identifier: 1abc or PDB_0000001abc) multiple data files contain information about the 3D atomic coordinates, sequences of biological macromolecules, information about any small molecules/ligands present in the entry, details about the structure-determination experiment, authors and publication information, experimental data, and the wwPDB validation report. Additional content stored in the archive includes documentation, summary reports, and software (among others). The PDB is a jointly-managed core archive of the Worldwide Protein Data Bank partnership [RCSB Protein Data Bank (RCSB PDB, rcsb.org); Protein Data Bank in Europe (PDBe, pdbe.org); Protein Data Bank Japan (PDBj, pdbj.org); Electron Microscopy Data Bank (EMDB, emdb-empiar.org); and Biological Magnetic Resonance Bank (BMRB, bmrb.io)]. RCSB PDB serves as the wwPDB-designated Archive Keeper for the Protein Data Bank. Additional wwPDB Core Archives are as follows: Electron Microscopy Data Bank (wwPDB-designated Archive Keeper: EMDB) Biological Magnetic Resonance Bank (wwPDB-designated Archive Keeper: BMRB)

Update Frequency

New and updated data files are published weekly and released on Wednesdays 0:00 UTC.

License

https://creativecommons.org/publicdomain/zero/1.0/

Documentation

https://www.wwpdb.org/documentation/file-format

Managed By

Worldwide Protein Data Bank Partnership

See all datasets managed by Worldwide Protein Data Bank Partnership.

Contact

https://www.wwpdb.org/about/contact

How to Cite

Protein Data Bank 3D Structural Biology Data was accessed on DATE from https://registry.opendata.aws/pdb-3d-structural-biology-data. For instructions on citing specific PDB entry by their Digital Object Identifier (DOI), please see https://www.wwpdb.org/about/cite-us.

Usage Examples

Publications

Resources on AWS

  • Description
    Globally cached distribution of the dataset. Web frontend also available to browse the dataset and file directory.
    Resource type
    CloudFront Distribution
    AWS Region
    us-west-2
    Explore
    Browse Dataset
  • Description
    Historical snapshots of archival datasets from 2005 onwards. Snapshots are generated annually and at major milestone.
    Resource type
    S3 Bucket
    Amazon Resource Name (ARN)
    arn:aws:s3:::pdbsnapshots
    AWS Region
    us-west-2
    AWS CLI Access (No AWS account required)
    aws s3 ls --no-sign-request s3://pdbsnapshots/
    Explore
    Browse Bucket

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