Dear developers
What is the difference between MEM and FEM maps? I read
the documentation and my understanding is both are
supposed to create beautiful maps :)
My problem is I have a structure at 1.9 A (a different
protein than the one referred to in my previous question),
the Rfactor is around 20/22 %, Rms bonds is 0.03 and Rms
angles is 1.845. If the bonds/angles get lower, the Rfactor
jumps up (same problem as the other structure).
Looking in Coot, there are positive and negative density and
missing density for the side chains of residues with high B
factor. For some reason, phenix.refine keeps on adding water
at strange places even at regions that I suspect to be just
noise. For this reason, I want to see if the noise is really
noise. A second reason is I have density that seem to be too
big for a water molecule but waters were placed anyway, so I
want to know if these are real positive density.
The dataset was obtained from only 50 degrees, SG is P 61 2
2. Including more images brought up the Rmerge to 30-40% and
Rfactor being stuck at 30 %. For some reason, I don't find the
X-ray statistics from the phenix.model_vs_data logfile but in
essence, I have:
28-1.9: 82 %
6 A - infinity: 95 %
in the shells (2.25-2.14, 2.14-2.04, 2.04-1.97, 1.97-1.9)
my completeness is around 85-62 % and CCwork is at least 70 %
and CC1/2 of the dataset is 60 % at the highest resolution
shell.
Thanks.