<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">I’ve run an Amber trajectory and generated grid data as a volumetric map. The density is calculated by treating each atom as a 3-dimensional Gaussian function whose standard deviation is equal to the van der Waals radius. The format of the file is xyz (see head of the file below). <div class=""><br class=""></div><div class=""><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">727</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156); min-height: 13px;" class=""><span style="font-variant-ligatures: no-common-ligatures;" class=""></span><br class=""></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 25.54114723 39.11305046 0.03241467</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 26.54114723 40.11305046 0.03353754</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 28.54114723 40.11305046 0.03223133</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 29.04114723 37.61305046 0.03259914</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 30.04114723 41.11305046 0.03254872</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 31.54114723 28.11305046 0.03995054</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 32.04114723 38.11305046 0.02878203</span></div><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><span style="font-variant-ligatures: no-common-ligatures;" class="">C 3.46464014 33.04114723 42.61305046 0.02801451</span></div></div><div class=""><br class=""></div><div class="">Is there a way to visualise in Chimera the protein together with volumetric map?</div><div class=""><br class=""></div><div class="">Thank you in advance for any advice</div><div class=""><br class=""></div><div class="">George</div><div class=""><br class=""><div class=""><br class=""></div><div class=""><div style="margin: 0px; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(254, 244, 156);" class=""><br class=""></div></div></div></body></html>