[Chimera-users] crystallographic symmops and lattice translationsin Chimera
bshaanan at bgu.ac.il
Sun Dec 16 02:54:17 PST 2007
Thanks so much ! You did surprize me indeed with Chimera capabilities that I wasn't aware of. I'll try your suggestions very soon.
P.S. We have a Nature Chemical Biology paper coming up soon with some Chimera pictures in it (and in the supplementary online material). I'll send the pdf's once it's online.
----- Original Message -----
From: Tom Goddard <goddard at cgl.ucsf.edu>
Date: Sunday, December 16, 2007 2:29
Subject: Re: [Chimera-users] crystallographic symmops and lattice translationsin Chimera
To: Boaz Shaanan <bshaanan at bgu.ac.il>
Cc: chimera-users at cgl.ucsf.edu
> Hi Boaz,
> Chimera can apply lattice translations in a variety of
> ways, though
> there isn't currently a simple flexible command for this.
> Multiscale tool (menu Tools / Higher-Order Structure) can make a
> 3 by 3
> by 3 array of unit cells, and you can drag to select and delete
> monomers. The Unit Cell tool (same menu) can translate the
> unit cell
> origin (values 0-1) and reposition all asym units to have their
> in the cell. That only allows translation by a fraction of
> a unit
> cell. The Crystal Coordinates script on the experimental
> features web
> page can write out PDB files for a block of unit cells.
> That has to be
> downloaded separately:
> Another trick is you could open two copies of your PDB translate
> one by
> one unit cell length along x with a command line "move x 123.5"
> apply the Unit Cell tool to both copies. You'd have to get
> the unit
> cell size in x by looking at the CRYST1 record in the PDB file.
> The Unit Cell tool has a button "Outline unit cell" that
> displays an
> outline box for the unit cell of a chosen PDB model.
Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Phone: 972-8-647-2220 ; Fax: 646-1710
-------------- next part --------------
An HTML attachment was scrubbed...
More information about the Chimera-users