InterProScan, Conserved domain database, SMART and PFAM
0
0
Entering edit mode
6 weeks ago

Hello guys Quick question, I trying to scan for some specific domains and others if present in protein of interest. I used InterProscan, but InterProScan did not predict all the domains. However, when I scan this proteins in PFAM and SMART I find these domains. Based on my knowledge InterProScan also include database such PFAM, SMART and Conserved domain database. How come I am not able to predict them when using InterProScan, whereas if I am using for example PFAM directly I get them.

Thanks in advance

InterProscan SMART and PFAM CDD • 185 views
ADD COMMENT
2
Entering edit mode

it is very well likely that Interproscan uses different thresholds (compared to what the individual DBs do) which could indeed result in domains being present/absent .

However, it would be very surprising if those domains score high, aka they are more likely to be borderline/grey zone matches

ADD REPLY

Login before adding your answer.

Traffic: 1864 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