Dear Yuan,
maybe you only have four - and a high solvent content.
Why don't you refine the four for a while with strict NCS, and then
use that improved model of one of them to do the original search again
(to satisfy yourself there are only four, or to find additional ones)?
On the other hand, while refining the four, additional density may
show up around them.
Mark
Quoting Yuan Cheng <[email protected]>:
Hey,
I am trying to use phaser to solve a protein structure. There is
predicted to be 8 mol/asu based on Matthew coefficient analysis.I am
using a protein that shares about 35% identity with my protein as a
search model. Phaser found the first five solutions and then failed to
find the 6th. The LLG and Z-score are as following. The possible loop
in the chainsawed model has been truncated.
"SOLU SET
RFZ=5.2 TFZ=7.1 PAK=0 LLG=44
RFZ=5.3 TFZ=13.8 PAK=0 LLG=169
RFZ=4.3 TFZ=69.6 PAK=0 LLG=1209
RFZ=4.6 TFZ=60.6 PAK=0 LLG=2200
RFZ=4.3 TFZ=5.7 PAK=0 LLG=2163
I used coot to check the difference map made with the model
including the above five solutions.The first four solutions fit the
density very well (didn't see many positive or negative densities). The
5th solution didn't fit the density at all. I saw many empty density in
the map, indicating I still need to find more solutions.The space group
I am using is P3 2 1. Could this be caused by a wrong space group?
Could anyone give me some suggestions about this? Thanks a lot!
Yuan
