<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">I was able to open your file on an Ubuntu 16.04 system and ChimeraX 0.5 with the exact same behavior that Elaine got on her Mac.<div class=""><br class=""></div><div class="">—Eric</div><div 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 class=""><span class="Apple-tab-span" style="white-space: pre;"> </span>Eric Pettersen</div><div class=""><span class="Apple-tab-span" style="white-space: pre;"> </span>UCSF Computer Graphics Lab</div></div>
</div>
<div><br class=""><blockquote type="cite" class=""><div class="">On Jan 25, 2018, at 10:33 AM, Maurício Menegatti Rigo <<a href="mailto:mauriciomr1985@gmail.com" class="">mauriciomr1985@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="auto" class="">Hi Elaine,<div dir="auto" class=""><br class=""></div><div dir="auto" class="">Thank you for your help. I'll verify my system then. </div><div dir="auto" class=""><br class=""></div><div dir="auto" class="">Sincerely,</div><div dir="auto" class="">Mauricio Menegatti Rigo</div></div><div class="gmail_extra"><br class=""><div class="gmail_quote">Em 25/01/2018 16:20, "Elaine Meng" <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> escreveu:<br type="attribution" class=""><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Maurício,<br class="">
I don’t have this problem opening your PDB file with ChimeraX 0.5 release (Dec 20, 2017) and also the current daily build. I only get one warning message that can be ignored, that it does not like the END on line 2615, and the structure looks fine. I’m testing on Mac.<br class="">
<br class="">
I’m not sure what’s happening for you. I guess you could make sure you are using a fairly recent version; otherwise, maybe it is something specific to your system or platform.<br class="">
Elaine<br class="">
<br class="">
> On Jan 25, 2018, at 10:05 AM, Maurício Menegatti Rigo <<a href="mailto:mauriciomr1985@gmail.com" class="">mauriciomr1985@gmail.com</a>> wrote:<br class="">
><br class="">
> Sure, this is my file.<br class="">
><br class="">
><br class="">
> 2018-01-25 16:01 GMT-02:00 Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>>:<br class="">
> Dear Mauricio,<br class="">
> It’s hard to tell without having the file, or at least part of it that gives these messages. Could send as attachment to the list, or if private, just to me.<br class="">
> Best,<br class="">
> Elaine<br class="">
> -----<br class="">
> Elaine C. Meng, Ph.D.<br class="">
> UCSF Chimera(X) team<br class="">
> Department of Pharmaceutical Chemistry<br class="">
> University of California, San Francisco<br class="">
><br class="">
> > On Jan 25, 2018, at 8:55 AM, Maurício Menegatti Rigo <<a href="mailto:mauriciomr1985@gmail.com" class="">mauriciomr1985@gmail.com</a>> wrote:<br class="">
> ><br class="">
> > I don't understand, my .pdb file seems perfectly fine, but I keep getting this error:<br class="">
> ><br class="">
> > Ignored bad PDB record found on line 1<br class="">
> > ATOM 1 N ASN A 1 61.433 13.168 52.787 1.00 69.56 N<br class="">
> ><br class="">
> > Ignored bad PDB record found on line 2<br class="">
> > ATOM 2 CA ASN A 1 62.543 13.695 51.962 1.00 69.56 C<br class="">
> ><br class="">
> > Ignored bad PDB record found on line 3<br class="">
> > ATOM 3 C ASN A 1 61.990 14.337 50.735 1.00 69.56 C<br class="">
> ><br class="">
> > Ignored bad PDB record found on line 4<br class="">
> > ATOM 4 O ASN A 1 60.999 13.878 50.167 1.00 69.56 O<br class="">
> ><br class="">
> > Ignored bad PDB record found on line 5<br class="">
> > ATOM 5 CB ASN A 1 63.479 12.547 51.555 1.00 69.56 C<br class="">
> ><br class="">
> > 2610 messages similar to the above omitted<br class="">
> ><br class="">
> > I can open it in Chimera, PyMol, VMD, among others. But in ChimeraX is always the same error. I'm working on Linux (Ubuntu 14.04) with ChimeraX version 0.5 (2018-01-24).<br class="">
> ><br class="">
> > Any help?<br class="">
> ><br class="">
> > Thanks in advance,<br class="">
> > Mauricio M Rigo, Ph.D<br class="">
><br class="">
> <BEST_SiglecE_murine-<wbr class="">BL00230001-chainA.pdb><br class="">
</blockquote></div></div>
_______________________________________________<br class="">ChimeraX-users mailing list<br class=""><a href="mailto:ChimeraX-users@cgl.ucsf.edu" class="">ChimeraX-users@cgl.ucsf.edu</a><br class="">Manage subscription:<br class="">http://www.rbvi.ucsf.edu/mailman/listinfo/chimerax-users<br class=""></div></blockquote></div><br class=""></div></body></html>