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...)

regards,

Ted Michelini
Institute of Molecular Biology
University of Oregon



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