<div dir="ltr">Hi Xiang,<div><br></div><div>Since you mentioned "or in other software", I think I can chime in to this topic. The short answer is to see "How to calculate DNA bending angle?" (<a href="http://forum.x3dna.org/faqs/how-to-calculate-dna-bending-angle/">http://forum.x3dna.org/faqs/how-to-calculate-dna-bending-angle/</a>).</div>
<div><br></div><div>3DNA, following the original NewHelix algorithm, calculates a best-fitted linear global helix (where sensible) using equivalent C1'...C1', RN9/YN1...RN9/YN1 atom pairs along each strand. The so-called global helical axis parameters are no longer widely used, but the best-fitted linear helical axis is a useful concept, and has been kept in 3DNA and DSSR [<a href="http://forum.x3dna.org/rna-structures/dssr-software-for-defining-the-(secondary)-structures-of-rna/">http://forum.x3dna.org/rna-structures/dssr-software-for-defining-the-(secondary)-structures-of-rna/</a>].</div>
<div><br></div><div>HTH,</div><div><br></div><div>Xiang-Jun</div><div><br></div><div><div class="gmail_extra"><div>--<br>Xiang-Jun Lu (PhD)<br>Email: <a href="mailto:xiangjun@x3dna.org" target="_blank">xiangjun@x3dna.org</a><br>
Web: <a href="http://x3dna.org/" target="_blank">http://x3dna.org/</a><br>Forum: <a href="http://forum.x3dna.org/" target="_blank">http://forum.x3dna.org/</a></div>
<br><br><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">
><br>
> On 1/20/14, 5:48 AM, ?? wrote:<br>
><br>
> Hi,<br>
><br>
> I have a DNA model which is composed of two DNA duplexes. I want to<br>
> measure the angle between the two duplexes and if there a way to do it in<br>
> PHENIX or in other software?<br>
><br>
> Thanks you very much for your help!<br>
><br>
> Sincerely,<br>
> Xiang<br>
><br>
> --<br>
> Li Xiang<br>
> Department of chemistry,<br>
> Purdue University<br>
> Email?<a href="mailto:lixiang1642@gmail.com">lixiang1642@gmail.com</a><br><br></blockquote></div></div></div></div>