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Updated: Jun 7, 2026
09:51
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
PDBe: Protein Data Bank in Europe
Sameer Velankar1, Younes Alhroub, Anaëlle Alili
1Protein Data Bank in Europe, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK.
Nucleic Acids Research
|November 4, 2010
Summary
The Protein Data Bank in Europe (PDBe) enhances access to biomacromolecular structures. New tools and a redesigned website improve usability for researchers, making structural data more accessible.
Area of Science:
- Structural Biology
- Bioinformatics
- Biochemistry
Background:
- The Protein Data Bank in Europe (PDBe) is a key partner in the Worldwide Protein Data Bank (wwPDB), managing the global archive of biomacromolecular structure data.
- There is a continuous need for improved tools and resources to facilitate the accessibility and analysis of structural data for the biomedical community.
Purpose of the Study:
- To enhance the accessibility and usability of the Protein Data Bank (PDB) archive.
- To develop new tools for accessing and analyzing biomacromolecular structural data.
- To improve the presentation and information content of PDB entries.
Main Methods:
- Development of a new browser for accessing and analyzing the structural archive.
- Enhancement of PDBe web pages with plain-English summaries and iconic representations (PDBprints).
- Expansion of information for structures determined by NMR spectroscopy.
- Redesign of the entire website for improved user experience.
- Collaboration with European Bioinformatics Institute (EBI) and international partners.
Main Results:
- Introduction of a user-friendly browser for structural data analysis.
- Implementation of PDBprints for clearer visualization of entry contents.
- Expanded data availability for NMR-derived structures.
- A redesigned, more intuitive website interface for all users.
- Successful collaboration through initiatives like SIFTS, linking PDB data with other databases.
Conclusions:
- The enhanced PDBe resources significantly improve access to and analysis of biomacromolecular structural data.
- The redesigned website and new tools cater to both expert and novice users.
- Collaborative initiatives like SIFTS add significant value by integrating PDB data with other biomedical resources.
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The primary structure of a protein is its amino acid sequence.
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