Hello all,
I'm looking for a program that can identify ER retention/retrieval signal
motifs in proteins. Most programs I have been able to find (such as TargetP
as an example) predict subcellular location based on the predicted presence
of N-terminal sequences such as a mitochondrial targeting peptide or a
secretory pathway signal peptide but don't seem to take into account ER
retention/retrieval signals! The consensus for ER targeting motifs in the
literature seem to include the ER retention signal K/HDEL* on soluble
proteins or the ER-retrieval signal for membrane bound proteins KKxx* in the
cytoplasmically exposed tails. Another ER retention/retrieval motif is RXR
found in many alpha and beta channel subunits, and clearly things get more
complicated when assembly of subunits in the ER mask ER retention signals,
raising questions of whether there are in fact common rules for positioning
of the motif within the sequence, structure of the motif, and also the
flanking structural context. Is there a program that anyone knows of that
takes any of this into account and predicts ER retention/retrieval signals?
Any suggestions or advice would be much appreciated!
Thanks in advance!
-Charu
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Charu Chaudhry
chaud...@mail.nih.gov
NIH,NICHD
Porter Neuroscience Research Center
Building 35, Room 3B-1002
Bethesda, MD 20892-3712
Phone: (301) 496-9347
FAX: (301) 496-2396
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