A series of PDB related databases for everyday needs
The Netherlands Cancer Institute · Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital · +4 more institutions
Abstract
The Protein Data Bank (PDB) is the world-wide repository of macromolecular structure information. We present a series of databases that run parallel to the PDB. Each database holds one entry, if possible, for each PDB entry. DSSP holds the secondary structure of the proteins. PDBREPORT holds reports on the structure quality and lists errors. HSSP holds a multiple sequence alignment for all proteins. The PDBFINDER holds easy to parse summaries of the PDB file content, augmented with essentials from the other systems. PDB_REDO holds re-refined, and often improved, copies of all structures solved by X-ray. WHY_NOT summarizes why certain files could not be produced. All these systems are updated weekly. The data…
Citation impact
- FWCI
- 13.02
- Percentile
- 100%
- References
- 88
Authors
8- RPRobbie P. JoostenCorresponding
The Netherlands Cancer Institute, Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital, Netherlands Bioinformatics Centre, European Molecular Biology Laboratory, Radboud University Medical Center, Radboud University Nijmegen
- TATim A. H. te Beek
Radboud University Medical Center, Radboud University Nijmegen, Netherlands Bioinformatics Centre, European Molecular Biology Laboratory, Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital
- EKElmar Krieger
Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital, Netherlands Bioinformatics Centre, Radboud University Nijmegen, European Molecular Biology Laboratory, Radboud University Medical Center
- MLMaarten L. Hekkelman
European Molecular Biology Laboratory, Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital, Radboud University Medical Center, Radboud University Nijmegen, Netherlands Bioinformatics Centre
- RHRob Hooft
Radboud University Nijmegen, Netherlands Cancer Institute-Antoni van Leeuwenhoek Hospital, Radboud University Medical Center, Netherlands Bioinformatics Centre, European Molecular Biology Laboratory
Topics & keywords
- Protein Data Bank (RCSB PDB)
- Protein Data Bank
- Structural genomics
- Biology
- Parsing
- Protein structure database
- Database
- Structural Classification of Proteins database