Search the PDB Using Drill-down Pie Charts

06/11

(Click image to enlarge)
Use data distribution pie charts to find a set of PDB entries. This example shows how to find C5 symmetric homo-pentameric human proteins.

Standard characteristics of PDB entries--organism, taxonomy, experimental method, X-ray resolution, release date, polymer type, EC, SCOP classification, protein symmetry, and protein stoichiometry--are used to create searchable data distribution summaries. 

The Explore Archive widget on the home page provides a quick statistical overview of the PDB. Browse the charts individually, or view them all together by clicking on the "Show all" link. Clicking on a pie chart image will display a more detailed graphic that lists the percentages for the categories shown.  Selecting one of the listed results will launch the corresponding structures in the Query Results Browser.

Data distribution drill-downs can also be used to refine search results and to explore the latest weekly update of PDB entries.

Any combination of categories is possible.  Users can drill-down to quickly access high resolution entries from a structure type search; human-related entries from a sequence search; or the most recent PDB entries containing a particular ligand.

For example, selecting the following drill-down options will quickly find C5 symmetric homo-pentameric human proteins:

Step 1: Protein Symmetry Cyclic
Step 2: Protein Symmetry C5
Step 3: Protein Stoichiometry Homomer
Step 4: Protein Stoichiometry A5
Step 5: Organism Homo sapiens

These charts can be hidden from the query results for users who want to only view the individual entries.

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