[phenixbb] generate_cif_for_NT_MPD

[Nathaniel Echols]

On Tue, Mar 6, 2012 at 3:05 AM, Xue-Yuan Pei <xyp20 at mole.bio.cam.ac.uk> wrote:
> Yes, I did try to import both cif files (for nucleic acid and MPD
> individually) into phenix.refine, but with no luck. any suggestion?

Can you please send us the .eff file and log file for a representative
run?  You can email them to bugs at phenix-online.org if you don't want
the entire list to see.

thanks,
Nat

> Regards,
> Xue
>
>
>
> On Mon, 5 Mar 2012, Kelly Daughtry wrote:
>
>> Maybe I'm missing something here, but don't you just import both cif files
>> (for nucleic acid, and MPD individually) into
>> phenix.refine? Did you try that?Kelly Daughtry
>>
>>
>>
>> *******************************************************
>> Kelly Daughtry, Ph.D.
>> Post-Doctoral Fellow, Raetz Lab
>> Biochemistry Department
>> Duke University
>> Alex H. Sands, Jr. Building
>> 303 Research Drive
>> RM 250
>> Durham, NC 27710
>> P: 919-684-5178
>> *******************************************************
>>
>>
>> On Mon, Mar 5, 2012 at 12:29 PM, Xue-Yuan Pei <xyp20 at mole.bio.cam.ac.uk>
>> wrote:
>>      Dear All:
>>      I am using phenix-1.7.2 to refine my structure. Now i am facing a
>> problem with .cif file. I could not generate
>>       cif files for a modified nucleic acid and MPD at same time with
>> phenix.elbow or phenix.ready_set. If I use
>>      phenix.elbow to generate cif file for modefied nucleic acid only,
>> phenix .refine complains about MPD cif not
>>      found, same for MPD. If I combine two cif files together,
>> phenix.refine also complains. Is there better to
>>      generate cif file containing both modified nucleic acid and MPD?
>>      Many thanks for your help,
>>      Xue
>>
>>
>>      _______________________________________________
>>      phenixbb mailing list
>>      phenixbb at phenix-online.org
>>      http://phenix-online.org/mailman/listinfo/phenixbb
>>
>>
>>
>
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