[phenixbb] measuring the angle between two DNA duplexes
pafonine at lbl.gov
Mon Jan 20 09:47:11 PST 2014
there is no ready-to-use tool for this right now, but I can spend a few
moments and add one so it's available in next Phenix nightly build in a
day or two.
phenix.angle model.pdb selection="chain A and resseq 1:123"
selection="chain B and resseq 20:345"
The underlying procedure would do the following:
- extract two sets of coordinates of atoms corresponding to two
provided atom selections;
- draw two optimal lines (LS fit) passing through the above sets of
- compute and report angle between those two lines?
Would this be helpful? Is it worth adding such tool?
On 1/20/14, 5:48 AM, ?? wrote:
> I have a DNA model which is composed of two DNA duplexes. I want to
> measure the angle between the two duplexes and if there a way to do it
> in PHENIX or in other software?
> Thanks you very much for your help!
> Li Xiang
> Department of chemistry,
> Purdue University
> Email:lixiang1642 at gmail.com <mailto:lixiang1642 at gmail.com>
> phenixbb mailing list
> phenixbb at phenix-online.org
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