Data Exploration Services
2021 RCSB.org Statistics
Traffic is tracked using internally-developed tools and filtered to remove robotic access.
| Month | Unique Visitors | Visits | Bandwidth |
|---|---|---|---|
| January 2021 | 587,765 | 2,422,007 | 13.41 TB |
| February 2021 | 574,071 | 2,206,949 | 11.7 TB |
| March 2021 | 671,513 | 2,633,381 | 12.76 TB |
| April 2021 | 651,281 | 2,670,856 | 20.39 TB |
| May 2021 | 649,803 | 2,637,108 | 16.45 TB |
| June 2021 | 608,497 | 3,081,825 | 19.11 TB |
| July 2021 | 562,113 | 2,838,500 | 24.55 TB |
| August 2021 | 576,550 | 2,843,187 | 33.64 TB |
| September 2021 | 621,297 | 2,941,780 | 25.56 TB |
| October 2021 | 655,537 | 3,351,539 | 26.66 TB |
| November 2021 | 652,557 | 3,254,997 | 28.26 TB |
| December 2021 | 606,662 | 2,902,141 | 25.02 TB |
New Chemical Sketch Tool
Use the Chemical Sketch Tool to draw or edit a molecule, then use the resulting SMILES or InChI string to search for matching molecular definitions in the PDB Chemical Component Dictionary.
This tool uses the web-based chemical drawing tool Marvin JS from ChemAxon to compose chemical sketches for chemical similar and substructure searches. Documentation is available.
The Chemical Sketch Tool can be acccessed from the top Search menu or from Advanced Search in the Chemical Search options (see image).
New PDB Citation MeSH Network Explorer
In January, the PDB contained more than 170,000 structures; ~150,000 had corresponding “primary citations” describing these entries in a peer-reviewed journal.
The National Library of Medicine assigns MeSH (Medical Subject Headings) from a controlled vocabulary to index articles for PubMed. MeSH terms typically appear in a hierarchical tree structure that starts with 16 main branches.
The PDB Citation MeSH Network Explorer flattens these trees into co-occurrence networks of MeSH terms associated with PDB entries. Each node on the graph is a publication, and nodes are linked when they share MeSH terms.
Publications that share similar MeSH terms are clustered together into Groups; the largest groups are color-coded. Depending on the size of the network, groups contain at least one, two, or three common MeSH terms. Clicking on a node reveals information about the publication, clustered group, and related PDB structures. Nodes that have multiple terms in common are located near each other; nodes that have less in common are located further apart.
This new way of visualizing MeSH terms can provide insights into relationships between PDB primary citations.
This MeSH Explorer has been developed for RCSB PDB by Digital Science and is powered by Dimensions, the world’s largest linked research information dataset.
Predicting Proteome-Scale Protein Structure with Artificial Intelligence
Striatin-interacting protein 1 (Q5VSL9) AlphaFold2 structure prediction
A new article by RCSB PDB Director Stephen K. Burley, Wadih Arap, and Renata Pasqualini appears in The New England Journal of Medicine
Predicting Proteome-Scale Protein Structure with Artificial Intelligence
N Engl J Med (2021) 385: 2191-2194 doi: 10.1056/NEJMcibr2113027
See also 3D Information and Biomedicine: How Artificial Intelligence/Machine Learning will Contribute to Cancer Patient Care and Vaccine Design and Open-access data: A cornerstone for artificial intelligence approaches to protein structure prediction (2021) Structure 29: 515-520 doi: 10.1016/j.str.2021.04.010
Scientific Software Developers and Postdocs: Join Our Team
RCSB PDB team pictured at the January 2020 Cloud Technologies Best Practices hosted by the Institute for Quantitative Biomedicine at Rutgers, The State University of New Jersey.
For more, visit our Careers page or Contact Us with questions.