What's the full list of UniProt topological domain types?
1
0
Entering edit mode
23 months ago
ngarber ▴ 60

Quick question - in UniProt REST text entries (e.g. https://rest.uniprot.org/uniprotkb/Q9UBP0.txt), there are 3 types of topological domains I know about.

TOPO_DOM, TRANSMEM, and INTRAMEM. Are there any others, or is that it?

I want to make sure my script doesn't miss any of them. For TOPO_DOM, I know I have to look at the next line to see which compartment it faces.

UniProt transmembrane topology Python REST • 853 views
ADD COMMENT
0
Entering edit mode

I'm pretty sure it is, but if in doubt, you can download all the proteins of a species in a csv file and do a search for unique elements in the topological domains column.

Best

ADD REPLY
3
Entering edit mode
23 months ago

The topological domains can have the values listed here: https://www.uniprot.org/help/topo_dom

TRANSMEM and INTRAMEM are documented in

https://www.uniprot.org/help/transmem

https://www.uniprot.org/help/intramem

respectively.

Please don't hesitate to contact the UniProt helpdesk via the contact form on the website.

ADD COMMENT
0
Entering edit mode

Thanks so much, this is what I needed!

ADD REPLY

Login before adding your answer.

Traffic: 1349 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6