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The RCSB PDB information portal for structural genomics.
Andrei Kouranov1, Lei Xie, Joanna de la Cruz
1Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, 610 Taylor Road, Piscataway, NJ 08854-8087, USA.
Nucleic Acids Research
|December 31, 2005
Summary
The Protein Data Bank (PDB) provides online resources for structural genomics, detailing initiatives, targets, and structures. It assesses functional genome coverage by analyzing protein data, enzyme classifications, and gene ontologies.
Area of Science:
- Structural biology
- Bioinformatics
- Genomics
Background:
- The Protein Data Bank (PDB) is a key resource for structural biology data.
- Worldwide structural genomics initiatives aim to determine protein structures on a large scale.
Purpose of the Study:
- To present the RCSB PDB's online portal for structural genomics initiatives.
- To provide tools for accessing information on structural genomics targets and structures.
- To assess the progress of structural genomics in covering the human genome functionally.
Main Methods:
- The portal integrates data from structural genomics sites, including progress reports and target lists.
- Information on protein targets, determination protocols, and associated data is compiled.
- Functional genome coverage is assessed using PDB structures, genomics targets, and homology models.
Main Results:
- The portal comprises three main components: Structural Genomics Initiatives, Targets, and Structures.
- Detailed information on individual structural genomics sites is available.
- Functional coverage analysis considers enzyme classification, gene ontology, and disease associations.
Conclusions:
- The RCSB PDB portal offers a comprehensive resource for structural genomics research.
- It facilitates the tracking and assessment of progress in determining protein structures.
- The analysis of functional genome coverage aids in understanding biological systems.