Question: Quantify leucine-rich repeats (LRR)
0
gravatar for brunabavelino
26 days ago by
brunabavelino10 wrote:

How do I determine the amount of LRR of a specific Glyma (example Glyma.18G280300), using NCBI's Conserved Domain Database (CDD) tool "https://www.ncbi.nlm.nih.gov/cdd", it has 4 LRR, 6 LRR. How do I analyze this? Are there any better tools than CDD for this purpose?

Thanks.

lrr protein cdd ncbi • 109 views
ADD COMMENTlink modified 26 days ago • written 26 days ago by brunabavelino10

Yes, thank you very much. In a job I saw that only using the NCBI's CDD was able to identify that it had X LRR domains, so I thought I was using it wrongly. Thank you for the tips.

ADD REPLYlink written 26 days ago by brunabavelino10
1
gravatar for Mensur Dlakic
26 days ago by
Mensur Dlakic7.1k
USA
Mensur Dlakic7.1k wrote:

A simple Google search identifies many resources:

It is difficulty to nail down the exact number of repeats, especially if some of them are degenerate. You may want to try Pfam as well.

ADD COMMENTlink written 26 days ago by Mensur Dlakic7.1k
1

According to one of these predictors, the whole C-terminal part of your protein (starting at residue 834) may be comprised of LRRs.

https://lrrpredictor.biochim.ro/jobs/prot72901/prot72901.php

ADD REPLYlink written 26 days ago by Mensur Dlakic7.1k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1614 users visited in the last hour