Some proteins contain low complexity sequence that playing important roles in physiological or phathological processes (mostly disordered sequence). We know there are some computational algorithm can be used to predict these sequence. Are there any convenient wesites for this prediction?
there is a websites that talks about Low complexity Region ( LCR) in a protein discuss LCR evolve rapidly through recombination events and compared between the hup and non-hup proteins depends on LCR
http://bmcsystbiol.biomedcentral.com/articles/10.1186/1752-0509-4-43
Dear Dr. Chen,
You may try this: https://omictools.com/lcr-detection-category.
And, would you please kindly tell us what you finally use? Thanks.
Regards,
Yingcheng
You also can try SMART tool: http://smart.embl-heidelberg.de/smart/show_motifs.pl
You can try https://www.ebi.ac.uk/Tools/seqstats/emboss_dotmatcher/
You put to compare with your sequence with itself, that is to say you put twice the sequence. Choose suitable parameters and you will see if there are regions of low complexity if you have repetitions of an amino acid in that sequence.
The Low Complexity Region will apears with high amount of points, and maybe by the axes you can guide yourself to initially know where these regions are in your protein.
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