Quantify leucine-rich repeats (LRR)
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13 months ago

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.

Protein LRR NCBI CDD • 337 views
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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.

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13 months ago
Mensur Dlakic ★ 15k

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.

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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

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