<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=us-ascii">
</head>
<body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
Dear Sirs:
<div class=""><br class="">
</div>
<div class="">I am modeling novel proteins on homologous structures from other organisms using SWISS-MODEL. After the model is completed I import the PDB file into Chimera to form disulfides and to produce publication quality graphics. I thought all was going
well until I discovered that SWISS-MODEL was actually truncating one or both termini of my target sequences by 1-5 residues.</div>
<div class=""><br class="">
</div>
<div class="">In one case, I created the missing C-terminal tripeptide using MacPyMol, but MacPyMol will not not add the tripeptide to the C-terminus, because it is designed only to create intramolecular bonds. So I imported the protein and the tripeptide
into Chimera. I selected the C-terminal oxygen of the protein and the N-terminal nitrogen of the tripeptide and tried to create a peptide bond using Build Structure>Adjust Bonds>Add Bond. Chimera claims that only one atom is selected, but in fact, both are
selected. I do not want to try to build a tripeptide one atom at a time. Is there any way to do ligate the tripeptide?</div>
<div class=""><br class="">
</div>
<div class="">Thanks very much!</div>
<div class=""><br class="">
</div>
<div class="">Steve Aird</div>
<br class="">
<br class="">
<div class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
<div style="color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
<span class="Apple-style-span" style="border-collapse: separate; font-variant: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; border-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-stroke-width: 0px;">
<div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">
Steven D. Aird<br class="">
Technical Editor<br class="">
Faculty Affairs Division<br class="">
Okinawa Institute of Science and Technology Graduate University<br class="">
1919-1 Tancha, Onna-son<br class="">
Kunigami-gun, Okinawa-ken<br class="">
Japan 904-0495<br class="">
<br class="">
Phone: 098-982-3584<br class="">
Cell: 080-4154-9504<br class="">
Email: <font color="#1f33ff" class=""><a href="mailto:steven.aird@oist.jp" class="">steven.aird@oist.jp</a></font><br class="">
<br class="">
</div>
</span></div>
</div>
</div>
</div>
<br class="">
</body>
</html>