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    <p>Dear Laura,</p>
    <p>maybe you can have a look at your pdb file by using a text editor
      to check if the pdb contains some unusual portion (like missing
      residues). As far I know Chimera tries to reconstruct missing
      residues but sometimes there could be something wrong.</p>
    <p>Best regards</p>
    <p>Marco</p>
    <p><br>
    </p>
    <div class="moz-cite-prefix">Il 24/03/2020 10:05, Laura Rotilio ha
      scritto:<br>
    </div>
    <blockquote type="cite"
cite="mid:CA+nyD62P9hsbhJR3Q42XvB_7jLXjhUE37OTg0nFTPwhTaVd_-A@mail.gmail.com">
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            <div dir="ltr">Goodmorning, 
              <div>I'm writing because I'm trying to open my pdb file
                but this error came out "Attempt to form loop bond". </div>
              <div>I tried to have a look at the _init_.py file in the
                line 1109 and I found this message: </div>
              <div>molList = pdbio.readPDBfile(file, errOut=errLog)<br>
              </div>
              <div><br>
              </div>
              <div>I can't understand this message and I don't know how
                to eventually modify my pdb file in order to be able to
                open it. </div>
              <div><br>
              </div>
              <div>Thanks in advance for helping me, </div>
              <div>Laura Rotilio</div>
              <div><br clear="all">
                <div><br>
                </div>
                -- <br>
                <div dir="ltr" class="gmail_signature">
                  <div dir="ltr">
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">Laura Rotilio, Ph.D.
                        Student</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px"><b>Structural Biology
                          Lab., Prof. A. Mattevi</b></span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">Dept. Biology and
                        Biotechnology "L. Spallanzani"</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">University of Pavia</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">Via Ferrata 9, 27100
                        Pavia</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">Italy</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(35,35,35)"><span
                        style="letter-spacing:0px">Tel. <a
                          href="tel:%2B39-0382-985525"
                          value="+390382985525"
                          style="color:rgb(17,85,204)" target="_blank"
                          moz-do-not-send="true">+39-0382-985525</a>/985534</span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(71,135,255)"><span
                        style="letter-spacing:0px;color:rgb(35,35,35)">Fax </span><span
                        style="letter-spacing:0px"><a
                          href="tel:%2B39-0382-528496"
                          value="+390382528496"
                          style="color:rgb(17,85,204)" target="_blank"
                          moz-do-not-send="true">+39-0382-528496</a></span></p>
                    <p style="margin:0px 0px
                      13px;font-size:10px;font-family:Verdana;color:rgb(2,30,170)"><span
                        style="letter-spacing:0px;color:rgb(35,35,35)">Web <a
                          href="http://www.unipv.it/biocry"
                          style="color:rgb(17,85,204)" target="_blank"
                          moz-do-not-send="true"><span
                            style="letter-spacing:0px;color:rgb(2,30,170)">www.unipv.it/biocry</span></a></span></p>
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      <pre class="moz-quote-pre" wrap="">_______________________________________________
Chimera-users mailing list: <a class="moz-txt-link-abbreviated" href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a>
Manage subscription: <a class="moz-txt-link-freetext" href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a>
</pre>
    </blockquote>
    <pre class="moz-signature" cols="72">-- 
Dr.Marco Sette, Ph.D.
Department of Chemical Sciences and Technology
University of Rome, "Tor Vergata"
via della Ricerca Scientifica, 00133, Rome, Italy
e-mail: <a class="moz-txt-link-abbreviated" href="mailto:sette@uniroma2.it">sette@uniroma2.it</a>
e-mail: <a class="moz-txt-link-abbreviated" href="mailto:m77it@yahoo.it">m77it@yahoo.it</a>
Tel.: +39-0672594424
Fax: +39-0672594328
<a class="moz-txt-link-freetext" href="http://stc.uniroma2.it/?page_id=622&cn-entry-slug=marco-sette">http://stc.uniroma2.it/?page_id=622&cn-entry-slug=marco-sette</a></pre>
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