Data Query, Reporting, and Access

The new Download Tool can be used to download multiple structure, experimental data (structure factors, NMR restraints), sequence, and ligand files in various file formats in uncompressed and compressed (gzipped) form.

Large structures without PDB-formatted files can be downloaded in PDBx/mmCIF format. Selecting the PDB file format option for large structures will return compressed archive files (tar.gz) containing collections of minimal/best effort files in PDB format.

The Download Tool can also be used to download FASTA sequence files and SDF ligand files, with an option to download these data for the entire archive.

This tool replaces our earlier Download Applet and requires an up-to-date Java installation (Take the Browser Compatibility Test). The Download Tool is launched as a stand-alone application from the RCSB PDB website using the Java Web Start protocol.

PV view of rubisco (PDB ID 4F0H).

An experimental version of the Protein Viewer (PV) has been added to the visualization options offered by the RCSB PDB for proteins and nucleic acid structures on each Structure Summary page. PV uses WebGL and enables hardware-accelerated graphics in modern web and mobile browsers.

PV can display symmetric structures aligned along the symmetry axes. It can also be launched in full screen or standalone windows.

For more information on PV, please visit biasmv.github.io/pv.

A new tool can be used to map genomic position to UniProt sequence and PDB structure For example, this tool can be used to locate the position of a SNP related to breast canceron the corresponding genomic position, UniProt sequence, and 3D structure.

The mapping tool displays the position of a SNP on the gene, the UniProt sequence, and 3D structure. By clicking on the green buttons, the consequences of this SNP at the gene, protein, and structure level can be explored.

In June, RCSB PDB developers from UCSD and Rutgers converged in New Jersey to develop new projects that will enable expanded support and access to the growing diversity of structures deposited to the PDB archive.