You need to give a bit more detail..
Here is a plan for MR but you may not have followed it.. there are many
ways to kill a pig!
1) get sequence alignment between model and your sequence in astandard
format.
2) run chainsaw to edit the model to renumber and rename to your
sequence, truncate residues - eg TYR to PHE - the OH would be deleted
and other atoms kept but relabelled as "PHE", etc
3) use the output model as input to phaser.
4) select a good solution ands run 20 cycles of restrained refinement
(you dont need to do rigid body - phaser does that itself..)
5) look at the map and hope to start rebuilding.
6) you could use an automated building procedure - Arp/wARP for higher
resolution, buccanneer autobuild at lower resolutions..
Eleanor
AntonioLeung wrote:
hi all,
I have a question, what is the input PDB file in Refmac? Is it edited from
model building from initial map generated by Phaser(in MR)? What can I do if
the initial map is hard to build in?
Thanks!
Antonio
