Hi Randy, this reminded me I had a similar question... What if I have PDB file with a partial model (that is not a "partial solution form previous job") and I want to use Phaser to find the rest? Thanks, Pavel On 1/17/14, 5:11 AM, Randy Read wrote:

Dear Swastik

If you have a partial MR solution using the Phaser-MR GUI, then you can choose it with the "Use partial solution from previous job" pull-down, and set up a job to add more copies to it.

Best wishes,

Randy Read

On 17 Jan 2014, at 12:41, Swastik Phulera wrote:

...

Dear All, I am trying an MR, it looks like there would be 16 dimers in the asymmetric unit, Upon running Phaser once it could easily fit two copies. I now wish to use this solution to perform further MR runs in order to locate the other dimers. I was just wondering what shall be the right way to go about it. Regards Swastik _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb

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Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills Road E-mail: [email protected] Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk

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Hi, When running Phaser from the Phenix GUI, writing .sol files is suppressed, so you have to use the GUI pulldown (which gets information from Python pickle files instead). In any case, Pavel was asking about when you didn't get the partial model from a Phenix run. In such a case, you can provide the model as an ensemble then, while you're still in the Ensembles tab in the GUI, check the box marked "Ensemble is fixed partial solution". This tells Phaser to use this as a fixed component to which no rotation or translation should be applied. Best wishes, Randy On 17 Jan 2014, at 16:09, "Oganesyan, Vaheh" wrote:

I think in such cases you can use *.sol file generated during firs run. Would be interested to know if it not the case.

Regards,

Vaheh 8-5851

-----Original Message----- From: [email protected] [mailto:[email protected]] On Behalf Of Pavel Afonine Sent: Friday, January 17, 2014 11:04 AM To: PHENIX user mailing list Subject: Re: [phenixbb] MR

Hi Randy,

this reminded me I had a similar question... What if I have PDB file with a partial model (that is not a "partial solution form previous job") and I want to use Phaser to find the rest?

Thanks, Pavel

On 1/17/14, 5:11 AM, Randy Read wrote:

...

Dear Swastik

If you have a partial MR solution using the Phaser-MR GUI, then you can choose it with the "Use partial solution from previous job" pull-down, and set up a job to add more copies to it.

Best wishes,

Randy Read

On 17 Jan 2014, at 12:41, Swastik Phulera wrote:

...

Dear All, I am trying an MR, it looks like there would be 16 dimers in the asymmetric unit, Upon running Phaser once it could easily fit two copies. I now wish to use this solution to perform further MR runs in order to locate the other dimers. I was just wondering what shall be the right way to go about it. Regards Swastik _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb

---

Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills Road E-mail: [email protected] Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk

_______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb

_______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb To the extent this electronic communication or any of its attachments contain information that is not in the public domain, such information is considered by MedImmune to be confidential and proprietary. This communication is expected to be read and/or used only by the individual(s) for whom it is intended. If you have received this electronic communication in error, please reply to the sender advising of the error in transmission and delete the original message and any accompanying documents from your system immediately, without copying, reviewing or otherwise using them for any purpose. Thank you for your cooperation. _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb

------ Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills Road E-mail: [email protected] Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk