[phenixbb] Rigid body refinement at low resolution

Xianchi Dong dongxianchi at gmail.com
Tue Dec 9 19:37:19 PST 2014


Hi Pavel, 
I also met the similar problem when refine my 6A data. I used the default setting in GUI.

Xianchi

> On Dec 9, 2014, at 21:35, Pavel Afonine <pafonine at lbl.gov> wrote:
> 
> Hi Jianghai,
> 
> normally this shouldn't happen. I wonder what's going on.. Could you please send me inputs and I will have a look right away?
> 
> Thanks,
> Pavel
> 
>> On 12/9/14 3:50 PM, Jianghai Zhu wrote:
>> Hi all,
>> 
>> I recently solved a complex structure at 8 Å. There are 3 molecules per asymmetric unit and each complex contains 8 domains. I was trying to do rigid body refinement in phenix.refine. However, all the rigid body refinement gave me worse Rfree, even at ultra-low resolution, and phenix.refine reversed the result to the original model. Anyway to make this rigid body refinement more stable? Is there a dampen factor in phenix.refine so that the program only moves a domain at a fraction of what it wants to, e.g. 1/2, 1/3… ?
>> 
>> Thanks.
>> 
>> Best,
>> 
>> —Jianghai
>> 
>> 
>> 
>> _______________________________________________
>> phenixbb mailing list
>> phenixbb at phenix-online.org
>> http://phenix-online.org/mailman/listinfo/phenixbb
> 
> _______________________________________________
> phenixbb mailing list
> phenixbb at phenix-online.org
> http://phenix-online.org/mailman/listinfo/phenixbb



More information about the phenixbb mailing list