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09:51
Investigating Protein Sequence-structure-dynamics Relationships with Bio3D-web
Published on: July 16, 2017
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Updated resources for exploring experimentally-determined PDB structures and Computed Structure Models at the RCSB
Stephen K Burley1,2,3,4,5,6, Rusham Bhatt1,2, Charmi Bhikadiya5
1Research Collaboratory for Structural Bioinformatics Protein Data Bank, Rutgers, The State University of New Jersey, Piscataway, NJ 08854, USA.
Nucleic Acids Research
|November 28, 2024
Summary
The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) now offers enhanced tools and visualizations for over 227,000 biostructures and 1 million protein models. Explore similar proteins with new features for structural biology research.
Area of Science:
- Structural Biology
- Bioinformatics
- Computational Biology
Background:
- The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is the US data center for the global Protein Data Bank (PDB) archive.
- It provides access to experimentally determined atomic-level 3D biostructures and computed protein models via its RCSB.org web portal.
Purpose of the Study:
- To report substantial additions to the tools and visualization features available at RCSB.org.
- To enhance user experience for exploring biostructure data and computed protein models.
Main Methods:
- Integration of new tools and visualization features into the RCSB.org platform.
- Organization of query results by redundancy-reduced Groups.
- Development of summary pages for exploring groups of similar proteins.
- Introduction of new programmatic tools and enhanced training opportunities.
Main Results:
- RCSB.org now provides access to over 227,000 experimentally determined 3D biostructures.
- Over 1 million Computed Structure Models (CSMs) of proteins are available, including those for humans, model organisms, pathogens, and crop plants.
- New features support 3D structure motif searches and facilitate exploration of protein groups.
Conclusions:
- The enhanced RCSB.org portal offers expanded resources for structural biology research.
- New features improve data accessibility, exploration, and programmatic access to biostructure information.
- These advancements support a wide range of biological research, including studies on human health and climate change adaptation.
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