<html><body><div style="color:#000; background-color:#fff; font-family:times new roman, new york, times, serif;font-size:14pt"><div id="yiv3928726556"><div><div style="color: rgb(0, 0, 0); background-color: rgb(255, 255, 255); font-family: 'times new roman', 'new york', times, serif; font-size: 14pt; "><div id="yiv3928726556yui_3_7_2_42_1373964979694_54"><span id="yiv3928726556yui_3_7_2_42_1373964979694_93">Hi Elaine,</span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new roman', 'new york', times, serif; background-color: transparent; font-style: normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_96"><br id="yiv3928726556yui_3_7_2_42_1373964979694_104"></span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new roman', 'new york', times, serif; background-color: transparent; font-style:
normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_101">I followed the protocol shown in the video tutorial (the link you provided), unfortunately it did'nt help. Is there any other way I can tackle the problem?</span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new roman', 'new york', times, serif; background-color: transparent; font-style: normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_107"><br id="yiv3928726556yui_3_7_2_42_1373964979694_113"></span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new roman', 'new york', times, serif; background-color: transparent; font-style: normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_110">Thanks</span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new
roman', 'new york', times, serif; background-color: transparent; font-style: normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_116"><br id="yiv3928726556yui_3_7_2_42_1373964979694_122"></span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_54" style="color: rgb(0, 0, 0); font-size: 19px; font-family: 'times new roman', 'new york', times, serif; background-color: transparent; font-style: normal; "><span id="yiv3928726556yui_3_7_2_42_1373964979694_119">Andy</span></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_56"></div><div id="yiv3928726556yui_3_7_2_42_1373964979694_58"> </div><div id="yiv3928726556yui_3_7_2_42_1373964979694_60"><font class="yiv3928726556Apple-style-span" color="#0000FF" face="garamond, 'new york', times, serif" size="7"><span class="yiv3928726556Apple-style-span" style="font-size:28px;line-height:19px;"><b><blockquote type="cite" style="color: rgb(0, 0, 0); font-family: Helvetica; font-weight: normal;
line-height: normal; font-size: 16px; " class="yiv3928726556yui_3_7_2_42_1373964979694_70"><div><div><div><span class="yiv3928726556Apple-style-span yiv3928726556yui_3_7_2_42_1373964979694_71" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; font-size: 16px; "><span class="yiv3928726556Apple-style-span
yiv3928726556yui_3_7_2_42_1373964979694_72" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; font-size: 16px; "><div style="word-wrap:break-word;"><div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b>Dr. Anindito Sen (Ph.D)</b></font></div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b>Department of Cell Biology & Anatomy</b></font></div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b>Graduate School of Medicine</b></font></div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b>University of
Tokyo</b></font></div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b>Tel & fax: +81-3-5841-3339</b></font></div></div></div></span></span></div></div></div></blockquote><div><div><div><div><span class="yiv3928726556Apple-style-span yiv3928726556yui_3_7_2_42_1373964979694_79" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; font-size: 16px; "><span class="yiv3928726556Apple-style-span yiv3928726556yui_3_7_2_42_1373964979694_80" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-indent: 0px; text-transform:
none; white-space: normal; widows: 2; word-spacing: 0px; font-size: 16px; "><div style="word-wrap:break-word;"><div><div><font class="yiv3928726556Apple-style-span" color="#341dbb" face="'Times New Roman'" size="4"><b><br></b></font></div></div></div></span></span></div></div></div></div></b></span></font></div><div><br id="yiv3928726556yui_3_7_2_42_1373964979694_62"></div> <div style="font-family: 'times new roman', 'new york', times, serif; font-size: 14pt; " id="yiv3928726556yui_3_7_2_42_1373964979694_65" class="yiv3928726556yui_3_7_2_42_1373964979694_64"> <div style="font-family: 'times new roman', 'new york', times, serif; font-size: 12pt; " class="yiv3928726556yui_3_7_2_42_1373964979694_83"> <div dir="ltr"> <hr size="1"> <font size="2" face="Arial"> <b><span style="font-weight:bold;">From:</span></b> Elaine Meng <meng@cgl.ucsf.edu><br> <b><span style="font-weight:bold;">To:</span></b> "<chimera-users@cgl.ucsf.edu> List"
<chimera-users@cgl.ucsf.edu> <br><b><span style="font-weight:bold;">Cc:</span></b> Anindito Sen <emailanindito@yahoo.co.in> <br> <b><span style="font-weight:bold;">Sent:</span></b> Saturday, 13 July 2013, 1:53<br> <b><span style="
font-weight:bold;">Subject:</span></b> Re: [Chimera-users] Fitting multiple atomic structures in a density map<br> </font> </div> <div class="yiv3928726556y_msg_container"><br>Whoops, second link was supposed to be:<br><<a rel="nofollow" target="_blank" href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html#sequence">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html#sequence</a>><br><br>On Jul 12, 2013, at 9:51 AM, Elaine Meng wrote:<br><br>> Hi Andy,<br>> You might try the sequential fitting option of the "fitmap" command. After it fits one structure, it removes the density from that part of the map before fitting the next. Details here including link to an example video:<br>> <br>> <<a rel="nofollow" target="_blank" href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html</a>><br>> <<a
rel="nofollow" target="_blank" href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html</a>><br>> <br>> I hope this helps,<br>> Elaine<br>> -----<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>> On Jul 12, 2013, at 12:43 AM, Anindito Sen wrote:<br>> <br>>> Dear All,<br>>> I need to fit atomic structures of two different proteins of different sizes in a density map. The location of both the proteins in the map is well known. While using the fitting tool, I can get the atomic structure of the bigger protein docked very well, the problem arises while fitting the smaller one. The fit option fails and docks
the structure
into the region of the density map where the atomic structure of the larger protein is docked , an incorrect position. <br>>> <br>>> How can I fit both the atomic structures in the density map correctly? The resolution of the density map is ~10Å at FSC cutoff of 0.5<br>>> Thanks<br>>> Andy<br>> <br>> <br>> _______________________________________________<br>> Chimera-users mailing list<br>> <a rel="nofollow" ymailto="mailto:Chimera-users@cgl.ucsf.edu" target="_blank" href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br>> <a rel="nofollow" target="_blank" href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br>> <br><br><br></div> </div> </div> </div></div></div></div></body></html>