<HTML><BODY style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; ">Hi Mingfeng,<DIV><SPAN class="Apple-style-span"><SPAN class="Apple-tab-span" style="white-space:pre"> </SPAN>Chimera's original PDB-parsing code was quite strict for exact format adherence. Over time, I have made it more forgiving in many ways, but right now you're getting caught by one of it's remaining strictures: according to the PDB format spec, the model number of a MODEL record has to be in columns 11-14. In your example the model numbers start in column 7. This problem will be fixed in the next snapshot, which we will be working on putting out next week.</SPAN></DIV><DIV><SPAN class="Apple-style-span"><SPAN class="Apple-tab-span" style="white-space:pre"> </SPAN>Also, as Elaine pointed out, you need to use ENDMDL records instead of END records.</SPAN></DIV><DIV><BR class="khtml-block-placeholder"></DIV><DIV><SPAN class="Apple-style-span">--Eric</SPAN></DIV><DIV><SPAN class="Apple-style-span"><BR><DIV> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="5" style="font: 16.0px Helvetica"><SPAN class="Apple-converted-space"> </SPAN>Eric Pettersen</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="5" style="font: 16.0px Helvetica"><SPAN class="Apple-converted-space"> </SPAN>UCSF Computer Graphics Lab</FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="5" style="font: 16.0px Helvetica"><SPAN class="Apple-converted-space"> </SPAN><A href="mailto:pett@cgl.ucsf.edu">pett@cgl.ucsf.edu</A></FONT></P> <P style="margin: 0.0px 0.0px 0.0px 0.0px"><FONT face="Helvetica" size="5" style="font: 16.0px Helvetica"><SPAN class="Apple-converted-space"> </SPAN><A href="http://www.cgl.ucsf.edu">http://www.cgl.ucsf.edu</A></FONT></P> <BR class="Apple-interchange-newline"> </DIV><BR><DIV><DIV>On Feb 5, 2007, at 8:08 AM, Mingfeng Yang wrote:</DIV><BR class="Apple-interchange-newline"><BLOCKQUOTE type="cite">Dear Chimera users and developers,<BR><BR>I'd like to use chimera to view the motions of a protein. If all the snapshots are to be saved in a single PDB file, what's the correct format for them? <BR><BR>I tried the following, but chimera complained that a single structure is included only. <BR><BR>Thanks,<BR>Mingfeng<BR>------------------<BR>MODEL 1<BR>ATOM 1 N ALA 1 -4.564 -7.956 -6.531 1.00 0.00 N<BR>ATOM 2 CA ALA 1 -5.237 -8.746 -5.532 1.00 0.00 C <BR>ATOM 3 C ALA 1 -4.360 -9.172 -4.378 1.00 0.00 C<BR>...<BR>ATOM 81 HN ALA 10 0.195 11.398 3.736 1.00 0.00 H<BR>END<BR>MODEL 2<BR>ATOM 1 N ALA 1 - 5.031 -8.234 -5.174 1.00 0.00 N<BR>....<BR> END<BR><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">_______________________________________________</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; ">Chimera-users mailing list</DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><A href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</A></DIV><DIV style="margin-top: 0px; margin-right: 0px; margin-bottom: 0px; margin-left: 0px; "><A href="http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users">http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users</A></DIV> </BLOCKQUOTE></DIV><BR></SPAN></DIV></BODY></HTML>