Data Exploration Services
RCSB.org Statistics
Traffic is tracked using internally-developed tools.
| Month | Unique Visitors | Visits | Bandwidth |
|---|---|---|---|
| January 2023 | 692,106 | 3,022,246 | 22.8TB |
| February 2023 | 698,473 | 2,874,097 | 23.43TB |
| March 2023 | 734,840 | 3,355,033 | 28.98TB |
Explore Even More Computed Structure Models Alongside PDB Data
In 2022, RCSB.org enabled access to ~1 million Computed Structure Models (CSMs) from AlphaFoldDB and RoseTTAFold (from ModelArchive). RCSB.org now offers access to updated AlphaFold models plus ~68,000 additional CSMs from ModelArchive that include:
- Freshwater sponge proteins (modeled with ColabFold, ModelArchive: ma-coffe-slac)
- African swine fever virus proteins (modeled with AlphaFold, ModelArchive: ma-asfv-asfvg)
- Structural models of the Sphagnum divinum proteome (modeled using AlphaFold2, ModelArchive: 10.5452/ma-ornl-sphdiv)
- Hetero-dimer set of proteins from cancer interactome (modeled using AlphaFold, ModelArchive: 10.5452/ma-t3vr3
Exploring PDB Structures and CSMs at RCSB.org
Experimental structures and CSMs are clearly identified throughout the website: a dark-blue flask icon is used for PDB structures and a cyan computer icon for CSMs.
Only experimentally-determined PDB structures are included in search results by default. Move the "Include CSM" from gray- to cyan-colored slider to activate.
Details are available at RCSB.org and described in
RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning
(2023) Nucleic Acids Research 51: D488–D508 doi:10.1093/nar/gkac1077
Search for Structural Motifs
Structural motif similarities between PDB structures can provide valuable functional and evolutionary insights. The Structural Motif service finds structures containing a small number of specific amino acids in proximity. This feature looks for residues that appear within 15 Å of each other; the residues may be located far apart in the sequence or appear in different polymer chains.
The search can be launched using the 3D viewer Mol* or through the Advanced Search>Structural Motif option. Documentation help is available.
This service rapidly searches the PDB using the functionality described in Real-time structural motif searching in proteins using an inverted index strategy 2020 PLoS Comput Biol 16(12): e1008502.