The Worldwide PDB recently launched a deposition, biocuration, and validation tool: OneDep. At various stages of OneDep data processing, validation reports for three-dimensional structures of biological macromolecules are produced. These reports are based on recommendations of expert task forces representing crystallography, nuclear magnetic resonance, and cryoelectron microscopy communities. The reports provide useful metrics with which depositors can evaluate the quality of the experimental data, the structural model, and the fit between them. The validation module is also available as a stand-alone web server and as a programmatically accessible web service. A growing number of journals require the official wwPDB validation reports (produced at biocuration) to accompany manuscripts describing macromolecular structures. Upon public release of the structure, the validation report becomes part of the public PDB archive. Geometric quality scores for proteins in the PDB archive have improved over the past decade.

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5718880PMC
http://dx.doi.org/10.1016/j.str.2017.10.009DOI Listing

Publication Analysis

Top Keywords

validation reports
8
pdb archive
8
validation
6
validation structures
4
structures protein
4
protein data
4
data bank
4
bank worldwide
4
worldwide pdb
4
pdb launched
4

Similar Publications

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!