Re: [ccp4bb] symmetry related molecules

2012-04-12 Thread Bosch, Juergen 
CONTACT (CCP4) , PISA, ProFunc
What do you mean by analyse ? Residues contacting each other, surface 
complementarity, buried surface area ?

Jürgen

On Apr 13, 2012, at 12:15 AM, Maher Alayyoubi wrote:

Hi guys,

Does any body know if there is a software that would analyse the
interface between a protein molecule and its symmetry related
molecules in the crystal structure?

Thank you,


Maher

..
Jürgen Bosch
Johns Hopkins University
Bloomberg School of Public Health
Department of Biochemistry  Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205
Office: +1-410-614-4742
Lab:  +1-410-614-4894
Fax:  +1-410-955-2926
http://web.mac.com/bosch_lab/

Re: [ccp4bb] Symmetry Related molecules

2011-08-05 Thread Thomas Holder 

On 08/05/2011 05:22 AM, Albert Guskov wrote:

have a look at SuperSym plugin for pymol
http://www.pymolwiki.org/index.php/SuperSym


Or the Supercell script. It has less features than SuperSym but does not 
require cctbx module.


http://pymolwiki.org/index.php/Supercell

Cheers,
  Thomas

--
Thomas Holder
MPI for Developmental Biology
Spemannstr. 35
D-72076 Tübingen

Re: [ccp4bb] Symmetry related molecules

2011-08-05 Thread Ramanuj Banerjee 
symmetry related molecules can be generated in pymol by :
1. opening the coordinates in pymol
2. Actions, generate, symmetry mates, radius

Re: [ccp4bb] Symmetry Related molecules

2011-08-05 Thread Yuri 

Thank you all,
Best

On Fri, 05 Aug 2011 09:19:55 +0200, Thomas Holder wrote:

On 08/05/2011 05:22 AM, Albert Guskov wrote:

have a look at SuperSym plugin for pymol
http://www.pymolwiki.org/index.php/SuperSym


Or the Supercell script. It has less features than SuperSym but does
not require cctbx module.

http://pymolwiki.org/index.php/Supercell

Cheers,
  Thomas


--
Yuri Pompeu

Re: [ccp4bb] Symmetry Related molecules

2011-08-04 Thread Albert Guskov 
Hi Yuri,
have a look at SuperSym plugin for pymol
http://www.pymolwiki.org/index.php/SuperSym
Best regards,
Albert
*Albert GUSKOV (Dr) *| Research Fellow | Division of Structural 
Computational Biology | Nanyang Technological University
Proteos 7-01, Biopolis Drive 61, Singapore 138673 Tel: (65) 6586-9690 GMT+8h
 | Cell: (65) 8366-2779 | Email: a.gus...@ntu.edu.sg | Web: www.ntu.edu.sg

2011/8/5 Yuri yuri.pom...@ufl.edu

 Whats the best way to visualize all the symmetry related molecules, I know
 COOT will show them as backbone.
 I was looking for publication quality images...PyMol maybe?
 thank you for suggestions

 --
 Yuri Pompeu