PDB NextGen Archive: centralizing access to integrated annotations and enriched structural information by the
Preeti Choudhary1, Zukang Feng2, John Berrisford1
1Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SD, UK.
Summary
The Protein Data Bank (PDB) Next Generation Archive centralizes structural annotations, improving access to biomolecular data. This resource enhances research by providing integrated, up-to-date information from trusted sources.
Area of Science:
- Structural Biology
- Bioinformatics
- Data Archiving
Background:
- The Protein Data Bank (PDB) is a global repository for 3D biomolecular structures.
- Integrating external annotations into the PDB is challenging due to its archival nature and distributed data centers.
Purpose of the Study:
- To establish a centralized system for enriched structural annotations.
- To streamline access to updated information from PDB partners and external biodata resources.
Main Methods:
- Development of the PDB Next Generation (NextGen) Archive.
- Centralization of mappings between PDB structures, UniProt sequences, and domain annotations (Pfam, SCOP2, CATH).
- Inclusion of intra-molecular connectivity information.
Main Results:
- The NextGen Archive provides integrated data, including protein structures, UniProt sequences, and domain annotations.
- Substantial user engagement with over 3.5 million data file downloads since launch.
- Ensured researchers have access to accurate, up-to-date, and easily accessible structural annotations.
Conclusions:
- The PDB NextGen Archive successfully centralizes and streamlines access to enriched structural annotations.
- The archive enhances research by providing researchers with reliable and integrated biomolecular data.
- High user engagement indicates the value and utility of the NextGen Archive in the scientific community.
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