Hi Bill,
Sorry if my first message was confusing. I do want to convert from A
to 2AP.
I'm working on following Paul Emsley's suggestions.
Thanks! and all the best,
--Buz
On Mar 28, 2009, at 11:48 AM, William Scott wrote:
On Sat, March 28, 2009 5:37 am, Paul Emsley wrote:
Buz Barstow wrote:
Dear All,
I'd like to add substitute a natural base (adenine) for a non-
natural
base (2-aminopurine), in a molecular model of an RNA molecule.
I'd like to do this with CCP4 and Coot. Could I ask for some help
please?
The "CCP4 way" would be to use sketcher and search for aminopurines.
You will find 2,6-diaminopurine (1AP). Load this up and delete the
6-amino group to convert to 2-aminopurine. Save the coordinates and
dictionary (give it a new name).
Fire up coot and File -> Import CIF dictionary...
Centre on the residue you want to substitute
Extensions -> Modelling -> Replace residue -> 1AP (or whatever you
called it).
(If you have a map loaded when you do this, it will try to fit to
that
as a final step)
Paul.
I may be mistaken, but I thought he was asking how to mutate from
2AP to
A. (If you use simple mutate, you get a menu of 20 amino acids to
choose
from.)
Bill
William G. Scott
Contact info:
http://chemistry.ucsc.edu/~wgscott/
