<html>
<head>
<meta http-equiv="content-type" content="text/html; charset=utf-8">
</head>
<body text="#000000" bgcolor="#FFFFFF">
<p>Dear Proteopedians,</p>
<p>For years, I have wanted to see protein phi and psi angles rotate
smoothly, showing clashes dynamically as they occur between atoms
at van der Waals radii. Sure enough, JSmol is quite capable of
this. I have made a new tutorial available in three formats:</p>
1. YouTube video (voice explaining):<br>
<a class="moz-txt-link-freetext"
href="https://tinyurl.com/RamachandranPrincipleYouTube">https://tinyurl.com/RamachandranPrincipleYouTube</a>
<p>2. Slideshow: <a class="moz-txt-link-freetext"
href="https://tinyurl.com/RamachandranPrinciple">https://tinyurl.com/RamachandranPrinciple</a></p>
<p>The images in the above two formats are <b>animated</b>, showing
translucent van der Waals-sized atoms rotating smoothly with
clashes forming and going away. Those animated clashes are
compared side by side with Ramachandran plots. Also included is an
animated explanation of dihedral angles.<br>
</p>
3. An interactive JSmol tutorial with checkboxes and buttons:<br>
<a class="moz-txt-link-freetext"
href="http://proteopedia.org/w/Tutorial:Ramachandran_principle_and_phi_psi_angles">http://proteopedia.org/w/Tutorial:Ramachandran_principle_and_phi_psi_angles</a><br>
<p>Please pass this on to websites that will alert educators.</p>
There is also a practice <b>Quiz</b> with immediate feedback:<br>
<a class="moz-txt-link-freetext"
href="http://proteopedia.org/w/Dihedral/Ramachandran_Principle_Quiz">http://proteopedia.org/w/Dihedral/Ramachandran_Principle_Quiz</a><br>
<p>Angel Herráez and I have also made an illustrated list of ten
websites that illustrate the Ramachandran principle and plot, and
phi/psi dihedral angles in various ways, mostly using JSmol:</p>
<p><a class="moz-txt-link-freetext"
href="http://proteopedia.org/w/Dihedral/Index">http://proteopedia.org/w/Dihedral/Index</a></p>
<p>Several of these are available also in <b>Spanish</b>, as
indicated there.</p>
<p>Thanks to Jaime Prilusky for installing this tutorial in
Proteopedia, and for providing an easy mechanism for making
quizzes.<br>
</p>
<p>-Eric<br>
</p>
<br>
<div class="moz-signature">-- <br>
Eric Martz, Professor Emeritus, Dept Microbiology
<br>
University of Massachusetts, Amherst MA US
<br>
<a href="http://Martz.MolviZ.Org">Martz.MolviZ.Org</a>
</div>
</body>
</html>