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-Aug 12, 2020. Covid-19 info
Covid-19 info
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URL: https://pdbjlc1.pdbj.org/emnavi/covid19.php
New page: Covid-19 featured information page in EM Navigator.
Related info.:Covid-19 info /
Mar 5, 2020. Novel coronavirus structure data
-Mar 5, 2020. Novel coronavirus structure data
Novel coronavirus structure data
- International Committee on Taxonomy of Viruses (ICTV) defined the short name of the 2019 coronavirus as "SARS-CoV-2".
- In the structure databanks used in Yorodumi, some data are registered as the other names, "COVID-19 virus" and "2019-nCoV". Here are the details of the virus and the list of structure data.
Related info.:Yorodumi Speices /
Aug 12, 2020. Covid-19 info
External links:COVID-19 featured content - PDBj /
Molecule of the Month (242):Coronavirus Proteases
+Jul 12, 2017. Major update of PDB
+Jun 16, 2017. Omokage search with filter
+Apr 13, 2016. Omokage search got faster
-Omokage search
Search structure by SHAPE
- "Omokage search" is a shape similarity search service for 3D structures of macromolecules. By comparing global shapes, and ignoring details, similar-shaped structures are searched.
- The search is performed ageinst >200,000 structure data, which consists of EMDB map data, PDB coordinates (deposited units (asymmetric units, usually), PDB biological units, and SASBDB mdoels).
- For the search query, you can use either a data in the PDB/EMDB/SASBDB or your original model.
- Supported formats are PDB (atomic model, SAXS bead model, etc.) and CCP4/MRC map (3D density map).
- Shape comparison is performed by iDR profile method, which uses 1D-distance profiles of super-simplified models generated by vector quantizaion in Situs package.
Related info.:Comparison of 3 databanks /
Sep 22, 2014. New service: Omokage search /
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