Data Exploration Services

RCSB PDB's website at was visited each month by an average of 448,925 unique visitors and >1 million unique visits. More than 37 TB of data were accessed. Traffic is tracked using AWstats. is visited by >1 million unique visitors/year.

Month Unique Visitors Visits Bandwidth
January 2018 469,866 1,308,127 3123.22 GB
February 2018 434,550 1,208,166 2719.71 GB
March 2018 500,382 1,411,474 2578.50 GB
April 2018 495,318 1,436,498 1976.61 GB
May 2018 493,052 1,962,823 3264.53 GB
June 2018 455,755 1,471,167 2638.91 GB
July 2018 441,657 1,435,199 2182.62 GB
August 2018 426,638 1,336,378 1921.11 GB
September 2018 489,292 1,550,503 2473.55 GB
October 2018 567,457 1,845,545 3497.92 GB
November 2018 582,762 1,862,634 3865.92 GB
December 2018 532,347 1,769,555 2589.80 GB

A snapshot of the PDB archive ( as of January 1, 2018 has been added to and Snapshots have been archived annually since 2005 to provide readily identifiable data sets for research on the PDB archive.

The directory 20190101 includes the 147,610 experimentally-determined structure and experimental data available at that time. Atomic coordinate and related metadata are available in PDBx/mmCIF, PDB, and XML file formats. The date and time stamp of each file indicates the last time the file was modified. The snapshot is 1,529 GB.

A variety of PDB statistics are available; including the distribution of structures released per year, and refinement software used. Visualization of PDB Data Distribution by Enzyme Classification allows users to interactively explore the enzyme classes in the PDB.

The 3D View at offers options for macromolecular-ligand interactions and X-ray electron density maps using NGL. Ligand interaction viewing options include hydrogen bonds, hydrophobic contacts, halogen bonds, pi interactions, and metal interactions. A 3D View User Guide is available.

Pi stacking and Cation-pi interaction of amitriptyline (ligand ID TP0) as seen in the A variant of human alfa1-acid glycoprotein (PDB structure 3APV).

NGL displays 2fo-fc (blue mesh/surface) and fo-fc (red/green mesh/surface) maps in the context of the structural model for X-ray crystallographic structures. Electron density maps combine the structural model (coordinates) and the experimentally-collected data from an X-ray structure determination and serve to represent the fit of the model to the data. Even in the best quality structures, there are areas of poor electron density, which may represent sections of the model that exist in multiple conformations. For more information, see the User Guide or learn more about Structure Factors and Electron Density at PDB-101.

Close up view of the electron density around the inhibitor (ligand ID R36) seen in complex with plasmepsin (PDB structure 1LEE; zoom in to get same view).


Investigation of protein quaternary structure via stoichiometry and symmetry ınformation (2018) PLoS ONE 1: e0197176. doi: 10.1371/journal.pone.0197176

Recon3D enables a three-dimensional view of gene variation in human metabolism (2018) Nature Biotechnology 36: 272–281 doi: 10.1038/nbt.4072

Automated evaluation of quaternary structures from protein crystals (2018) PLoS Comput Biol 14: e1006104 doi: 10.1371/journal.pcbi.1006104

Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm (2018) bioRxiv doi: 10.1101/297960

NGL viewer: web-based molecular graphics for large complexes (2018) Bioinformatics 34: 3755–3758. doi: 10.1093/bioinformatics/bty419