Question: Prokaryotic protein binding motifs databases
gravatar for Andrew Sonin
9 weeks ago by
Russia, Moscow, MIPT
Andrew Sonin0 wrote:


I'm researching the promoters of bacterial and archean operons, and I would like to ask what data bases of DNA-binding motifs of prokaryotic regulatory proteins exist today?

Thank you in advance for any information.

ADD COMMENTlink modified 9 weeks ago by manuel.belmadani60 • written 9 weeks ago by Andrew Sonin0
gravatar for manuel.belmadani
9 weeks ago by
manuel.belmadani60 wrote:

The MEME suite provides some prokaryotic databases of different sources:

You can download them here:

You can either follow the description back to the source database, or use those since they're in MEME format, meaning they're readily usable with other tools in the MEME suite. For example, TOMTOM can take a predicted motif (IUPAC nucleotide, or a PSWM) and will align it to the entire motif set from the specified MEME format database(s), giving you p-value/E-values based on how strongly/distinctively your motif matches existing entries in the database(s).

ADD COMMENTlink modified 9 weeks ago • written 9 weeks ago by manuel.belmadani60
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