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 <[log in to unmask]>:
> 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
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