Microbial 'omics

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anvi-setup-pdb-database [program]

Setup or update an offline database of representative PDB structures clustered at 95%.

See program help menu or go back to the main page of anvi’o programs and artifacts.

Table of Contents



Requires or uses


This program downloads a section of the Protein Data Bank which is required for strucutral analyses in anvi’o, such as running anvi-gen-structure-database or anvi-3dev.

anvi-setup-pdb-database --just-do-it

If you already have a pdb-db artifact and are trying to redownload this data, run

anvi-setup-pdb-database --reset

Or if you just want to update your database, run

anvi-setup-pdb-database --update

Edit this file to update this information.

Additional Resources

Are you aware of resources that may help users better understand the utility of this program? Please feel free to edit this file on GitHub. If you are not sure how to do that, find the __resources__ tag in this file to see an example.