You've also applied BRAIN 2.0 ?

I mean looked at homologous structures, superimposed them and decided which parts are to be removed ?

Never trust programs :-) There could be a flexible alpha helix which if you removed it would have given you in all programs a solution.

it's Monday,

Jürgen

On May 24, 2010, at 10:24 AM, Paul Lindblom wrote:

The last molrep job just finished and it found only an odd solution. So I think I will try to get my phases elsewhere. But I am somewhat astonished that there are still enough cases you can't solve by MR.

Thanks to all who replied. Here is a list of servers/programs to find a MR model:

http://www.ebi.ac.uk/pdbe-srv/view/

http://www.ebi.ac.uk/Tools/fasta33/index.html

http://meta.bioinfo.pl/submit_wizard.pl

XtalPred

http://ffas.burnham.org/XtalPred-cgi/xtal.pl

Balbes  http://www.ysbl.york.ac.uk/~fei/balbes/

use the OCA browser for FASTA searches of the PDB

Modeller or Rosetta (both also available as web servers)

ensemble of many proteins with Phaser

FFAS server maintained by the Godzik lab

generate some models using the "Phyre" server   ( http://www.sbg.bio.ic.ac.uk/~phyre/ )  and feed the best .pdbs into Mr Bump.

-

Jürgen Bosch

Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205
Phone: +1-410-614-4742
Lab:      +1-410-614-4894
Fax:      +1-410-955-3655
http://web.mac.com/bosch_lab/