[phenixbb] mutate to polyAla in phenix.automr?
Randy Read
rjr27 at cam.ac.uk
Fri May 8 03:38:50 PDT 2009
Hi,
We are adding various model preparation utilities for the MR pipelines
in Phenix, and they will appear fairly soon. If you really want a
polyAla model, it will be possible to trick the tools into doing this
for you (e.g. by making an alignment file that has all Ala for your
target). However, I personally do not believe in using polyAla
models. (If there are clear examples of where this is the best
option, I'd be pleased to hear about them.) I prefer the
Schwarzenbacher et al approach of trimming non-identical sidechains
back to Ala but leaving the identical ones alone.
Regards,
Randy Read
On 7 May 2009, at 15:01, Francis E Reyes wrote:
> Is there an option or a phenix.* utility to mutate a MR model to poly
> ALA before the MR is done?
>
> Thanks!
> FR
>
> ---------------------------------------------
> Francis Reyes M.Sc.
> 215 UCB
> University of Colorado at Boulder
>
> gpg --keyserver pgp.mit.edu --recv-keys 67BA8D5D
>
> 8AE2 F2F4 90F7 9640 28BC 686F 78FD 6669 67BA 8D5D
>
>
>
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://www.phenix-online.org/mailman/listinfo/phenixbb
------
Randy J. Read
Department of Haematology, University of Cambridge
Cambridge Institute for Medical Research Tel: + 44 1223 336500
Wellcome Trust/MRC Building Fax: + 44 1223 336827
Hills Road E-mail: rjr27 at cam.ac.uk
Cambridge CB2 0XY, U.K. www-
structmed.cimr.cam.ac.uk
More information about the phenixbb
mailing list