<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">Dear Siyu Zhao,<div>The file from ZDOCK does not follow the PDB format description because it has extra numbers in the wrong places after the X,Y,Z coordinates. Probably Jmol and DSV are not bothered by those extra numbers, but Chimera does not tolerate them. If you just remove the columns after the coordinates, the file will display in Chimera. Below I attached an edited copy of your file which includes only columns 1-54.</div><div><br></div><div><font face="Monaco"><span style="font-size: 11px;">ZDOCK output before editing:</span></font></div><div><font face="Monaco"><span style="font-size: 11px;">ATOM 1 N LYS A 2 -1.022 -5.354 37.251 4 1 1.63 -0.15</span><br><span style="font-size: 11px;">ATOM 2 CA LYS A 2 -1.230 -4.312 38.301 4 1 2.03 0.10</span><br><span style="font-size: 11px;">ATOM 3 C LYS A 2 0.011 -3.410 38.417 4 0 1.67 0.60</span><br><span style="font-size: 11px;">…after editing (OK for Chimera):</span></font></div><div><font face="Monaco"><span style="font-size: 11px;">ATOM 1 N LYS A 2 -1.022 -5.354 37.251<br>ATOM 2 CA LYS A 2 -1.230 -4.312 38.301<br>ATOM 3 C LYS A 2 0.011 -3.410 38.417</span></font></div><div><font face="Monaco"><span style="font-size: 11px;">Example from RCSB PDB:</span></font></div><div><div style="margin: 0px;"><font face="Monaco"><span style="font-size: 11px;">ATOM 1 N ALA A 1 46.457 12.189 21.556 1.00 56.69 N </span></font></div><div style="margin: 0px;"><font face="Monaco"><span style="font-size: 11px;">ATOM 2 CA ALA A 1 47.614 11.997 22.448 1.00 55.96 C </span></font></div><div style="margin: 0px;"><font face="Monaco"><span style="font-size: 11px;">ATOM 3 C ALA A 1 47.538 12.947 23.645 1.00 55.17 C </span></font></div></div><div><br></div><div>About PDB format:</div><div><<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/framepdbintro.html">http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/framepdbintro.html</a>></div><div><br></div><div>I hope this helps,</div><div>Elaine<br><div>-----<br>Elaine C. Meng, Ph.D. <br>UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br><br></div></div></body></html>