<html xmlns:v="urn:schemas-microsoft-com:vml" xmlns:o="urn:schemas-microsoft-com:office:office" xmlns:w="urn:schemas-microsoft-com:office:word" xmlns:m="http://schemas.microsoft.com/office/2004/12/omml" xmlns="http://www.w3.org/TR/REC-html40">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
<meta name="Generator" content="Microsoft Word 15 (filtered medium)">
<!--[if !mso]><style>v\:* {behavior:url(#default#VML);}
o\:* {behavior:url(#default#VML);}
w\:* {behavior:url(#default#VML);}
.shape {behavior:url(#default#VML);}
</style><![endif]--><style><!--
/* Font Definitions */
@font-face
{font-family:"Cambria Math";
panose-1:2 4 5 3 5 4 6 3 2 4;}
@font-face
{font-family:Calibri;
panose-1:2 15 5 2 2 2 4 3 2 4;}
/* Style Definitions */
p.MsoNormal, li.MsoNormal, div.MsoNormal
{margin:0cm;
font-size:11.0pt;
font-family:"Calibri",sans-serif;
mso-fareast-language:EN-US;}
span.EmailStyle17
{mso-style-type:personal-compose;
font-family:"Calibri",sans-serif;
color:windowtext;}
.MsoChpDefault
{mso-style-type:export-only;
font-family:"Calibri",sans-serif;
mso-fareast-language:EN-US;}
@page WordSection1
{size:612.0pt 792.0pt;
margin:72.0pt 72.0pt 72.0pt 72.0pt;}
div.WordSection1
{page:WordSection1;}
--></style>
</head>
<body lang="en-SE" link="#0563C1" vlink="#954F72" style="word-wrap:break-word">
<div class="WordSection1">
<p class="MsoNormal"><span lang="SV">Hi,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="SV"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">I have opened a pdb structure of a ribosome, hidden parts of it and then saved a new pdb of the displayed atoms through “File->Save pdb” ticking “save displayed atoms only”. When I try to open this saved pdb file, Chimera
states “Opened ….pdb”, however, it does not display. The model panel is empty etc. Checking the pdb file in textedit, it does contain the secondary structure information and all the amino acids but it seems to lack coordinate information, see pictures below
of parts of it. I’ve also tried to save the pdb through “Actions-> write pdb”.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Do you know how I can solve this issue? Is it a saving issue or a displaying issue?<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Thanks,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US">Magdalena <o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US"><img width="781" height="849" style="width:8.1354in;height:8.8437in" id="Picture_x0020_1" src="cid:image001.png@01D8C371.3C765B60"></span><img width="771" height="838" style="width:8.0312in;height:8.7291in" id="Picture_x0020_2" src="cid:image002.png@01D8C371.3C765B60"><span lang="EN-US"><o:p></o:p></span></p>
</div>
<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01//EN" "http://www.w3.org/TR/html4/strict.dtd">
<meta http-equiv="Content-Style-Type" content="text/css">
<title></title>
<meta name="Generator" content="Cocoa HTML Writer">
<meta name="CocoaVersion" content="1561.6">
<style type="text/css">
p.p1 {margin: 0.0px 0.0px 0.0px 0.0px; line-height: 14.0px; font: 12.0px Times; color: #000000; -webkit-text-stroke: #000000; min-height: 14.0px}
p.p2 {margin: 0.0px 0.0px 0.0px 0.0px; line-height: 14.0px; font: 12.0px Times; color: #000000; -webkit-text-stroke: #000000}
span.s1 {font-kerning: none}
span.s2 {text-decoration: underline ; font-kerning: none; color: #0000ee; -webkit-text-stroke: 0px #0000ee}
</style>
<p class="p1"><span class="s1"></span><br>
</p>
<p class="p1"><span class="s1"></span><br>
</p>
<p class="p2"><span class="s1"><i>När du skickar e-post till Karolinska Institutet (KI) innebär detta att KI kommer att behandla dina personuppgifter.
</i><a href="https://ki.se/medarbetare/integritetsskyddspolicy"><span class="s2">Här finns information om hur KI behandlar personuppgifter</span></a>.<span class="Apple-converted-space"> </span></span></p>
<p class="p1"><span class="s1"></span><br>
</p>
<p class="p2"><span class="s1"><i>Sending email to Karolinska Institutet (KI) will result in KI processing your personal data.</i>
<a href="https://ki.se/en/staff/data-protection-policy"><span class="s2">You can read more about KI’s processing of personal data here</span></a>.<span class="Apple-converted-space"> </span></span></p>
</body>
</html>