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<div class="">On Feb 25, 2016, at 12:21 PM, Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu" class="">meng@cgl.ucsf.edu</a>> wrote:</div>
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<div class="">Hi David,<br class="">
If generating separate maps based on a distance cutoff from the atoms is acceptable, you could try using Color Zone (Tools… Volume Data… Color Zone).<br class="">
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/colorzone/colorzone.html" class="">http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/colorzone/colorzone.html</a>><br class="">
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First you’d have to color the components different colors, then select all their atoms. In Color Zone, use the slider to pick a suitable cutoff (if any) and then click “Split Map” to get separate maps for the zones.<br class="">
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If the components are all separate models, you could color them uniquely and then select them with commands such as:<br class="">
rainbow models<br class="">
select <br class="">
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Alternatively, although the Segment Map tool (in same menu as Color Zone) uses the watershed method and not the atoms, you could try Segment Map and then interactively group/ungroup the resulting segments to correspond with your docked components. I don’t
know how easy or hard that might be.<br class="">
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<div>There is an automated way of doing this as well which isn’t hard... You can see the ‘Segmenting with Fitted Models’ tutorial here as a guide:</div>
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<div><a href="http://ncmi.bcm.edu/ncmi/software/segger/docs" class="">http://ncmi.bcm.edu/ncmi/software/segger/docs</a></div>
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<div>Greg</div>
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<div class=""><<a href="http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html" class="">http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html</a>><br class="">
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I hope this helps,<br class="">
Elaine<br class="">
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Elaine C. Meng, Ph.D. <br class="">
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br class="">
Department of Pharmaceutical Chemistry<br class="">
University of California, San Francisco<br class="">
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<blockquote type="cite" class="">On Feb 25, 2016, at 8:33 AM, David Haselbach <<a href="mailto:dhaselb@gwdg.de" class="">dhaselb@gwdg.de</a>> wrote:<br class="">
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Hi,<br class="">
I do have a cryo EM map of a large complex and I fitted/modeled the individual protein components. Now I would like to segment my map according to those fitted models. Is there a possibility of doing that automatically?<br class="">
Cheers<br class="">
David<br class="">
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