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Restriction Enzymes for AA sequence database ?

Ted Michelini tedm at darkwing.uoregon.edu
Sat Nov 4 00:30:15 EST 1995

In article <fergusb-0211951805430001 at morrison3.mbi.ucla.edu>,
fergusb at microbio.lifesci.ucla.edu (Morrison Lab) wrote:

> Hello Netters,
> Can anybody help me with  a problem. I have recently been trying to find
> some suitable restriction enzymes to cut a hole in an amino acid sequence
> , specifically DDKEL i.e. asp-asp-lys-glu-leu. You would imagine that this
> is the sort of thing that a computer would be very good at and could do
> easily.
> I thought so too but could not find a program to do it and nor can New
> England Biolabs or Boehringer Mannheim - they both said "yes, that would
> be a good idea, wouldn't it ?" but couldn't help. 
> I am currently typing all possible DNA sequences that code for these AAs
> into the Mac and searching through each one but this, as you might
> imagine, is a real pain in the ass, and I would like to do this quite a
> lot without driving myself demented.
> Anybody out there know of something suitable that might help.
> Any replies VERY gratefullry received by mail/phone/letter/FAX
> Thanks,
> Fergus Byrne

   I'm fairly sure you can generate a file with reverse translate in GCG
and then do a map enzyme digest on it. Check it out. 
(of course GCG can do anything, doing ANYTHING on GCG is another story...)


Ted Michelini
Institute of Molecular Biology
University of Oregon

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