Question: Searching NCBI database for proteins with specific C terminus
gravatar for gm434
13 months ago by
gm4340 wrote:

Hi all,

I am looking for a way to search the NCBI bacterial database for proteins with a specific C terminus sequence.

I have found the ProTeus tool, however this does not give a bacterial output.Is anyone able to point me in the right direction? I think there must be a way to do this with blast?

blast protein • 372 views
ADD COMMENTlink modified 13 months ago by Elisabeth Gasteiger1.8k • written 13 months ago by gm4340
gravatar for Elisabeth Gasteiger
13 months ago by
Elisabeth Gasteiger1.8k wrote:

You can use ScanProsite to submit MOTIFS to scan them against a PROTEIN sequence database: Select option 2 and submit the N-terminal sequence, preceeded by "<" to anchor the sequence to the N-terminus:


Open "Filters" and specify "bacteria", or the corresponding tax_id, 2

ADD COMMENTlink written 13 months ago by Elisabeth Gasteiger1.8k

Does MPVNIKXF> anchor to C-terminus? Original question is about C terminus.

ADD REPLYlink modified 13 months ago • written 13 months ago by genomax92k

Yes, you are right, sequence> anchors sequence to the C-terminus. Thanks for spotting my mistake!

ADD REPLYlink written 13 months ago by Elisabeth Gasteiger1.8k
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