Question: Searching NCBI database for proteins with specific C terminus
gravatar for gm434
9 weeks 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 • 143 views
ADD COMMENTlink modified 8 weeks ago by Elisabeth Gasteiger1.7k • written 9 weeks ago by gm4340
gravatar for Elisabeth Gasteiger
8 weeks ago by
Elisabeth Gasteiger1.7k 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 8 weeks ago by Elisabeth Gasteiger1.7k

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

ADD REPLYlink modified 8 weeks ago • written 8 weeks ago by genomax75k

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

ADD REPLYlink written 8 weeks ago by Elisabeth Gasteiger1.7k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 931 users visited in the last hour