Hello all,
I'm just finishing up my first structure, a membrane protein with 5
fold NCS. The native dataset is good to about 2.1A. The R factors are good,
around .22/.26 without waters. The only problem is that I'm having a
difficult time fitting what looks to be a very important (potential
Hi Drew,
Have you tried arp/wARP (the LOOPY option) or the AutoBuild option in Phenix
? If you haven't tried this you can try a complete rebuilding using you
model as it stands and providing the complete sequence of your protein.
At this resolution (2.1A) , they may be able to rescue your loops at
Dear Drew,
Your loop region might or might not obey the ncs of the rest of the
molecule, so you should be sure to examine both the ncs averaged map
and each individual, nonaveraged, map.
You should be willing to accept, however, that this region may not
structured and it may not be possible
Thanks for these suggestions. The protein is purified and crystallized in
the presence of substrate at all times. A reason that I'd like to assign all
the polypeptide density is that the remaining density in the active site
could be my substrate. I am fairly certain that the loops do not obey the
N
Hi Drew,
Sorry for the slightly late reply. Something that 'might' be able to help
(though I fully agree with Dale's reply) is the procedure for local density
improvement described here:
Acta Cryst. (1997). D53, 540-543 "Local Improvement of Electron-Density Maps".
We are currently in the
