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<p>Dear Buster users,</p>
<p>I'm refining a 3.5 A structure of a Ubiquitin bound protease. The
Ubiquitin is covalently bound to the protease active site through
a Propargylamide (AYE) which replaces Ub Gly76 and connects the Ub
C-terminus and SG of the active site's Cys.</p>
<p>Following the Buster Wiki tutorial
(<a class="moz-txt-link-freetext" href="https://www.globalphasing.com/buster/wiki/index.cgi?GradeCovalentTutorial">https://www.globalphasing.com/buster/wiki/index.cgi?GradeCovalentTutorial</a>)
I have created a *.cif file with the grade webserver containing
the ligand including both covalent bonds Gly->AYE->Cys. <br>
</p>
<p>I would now like to create a link dictionary using <span
style="color: rgb(0, 0, 0); font-family: monospace; font-size:
medium; font-style: normal; font-variant-ligatures: normal;
font-variant-caps: normal; font-weight: 400; letter-spacing:
normal; orphans: 2; text-align: start; text-indent: 0px;
text-transform: none; white-space: normal; widows: 2;
word-spacing: 0px; -webkit-text-stroke-width: 0px;
background-color: rgb(255, 255, 255); text-decoration-style:
initial; text-decoration-color: initial; display: inline
!important; float: none;">covalent_grade_create_linkdic.pl</span>
. How can I specify the two covalent bonds (1) Gly C - AYE N and
(2) AYE C2 -> Cys SG separately with this script? </p>
<p>Thanks in advance for your answers!</p>
<p>Florian<br>
</p>
<pre class="moz-signature" cols="72">--
Dr. Florian Sauer
Rudolf Virchow Zentrum für Experimentelle Biomedizin
Josef-Schneider-Str. 2, Haus D15
97080 Würzburg
</pre>
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