[phenixbb] where is the fo-fc omit map?

Terwilliger, Thomas C terwilliger at lanl.gov
Tue Mar 6 10:43:46 PST 2012

Hi Hongjun,

The omit map calculation only generates a 2Fo-Fc omit (or composite omit) map.  I think however that for an omit map the 2Fo-Fc map and the Fo-Fc ought to look really similar, because in the omit region there are no contributions from the model.  That's why the Fo-Fc map is not provided.

The statement in the (old) documentation about using weights in the map is just so that you calculate the map with FP PHIM FOMM; however in recent versions of phenix you have FWT PHWT so you don't need any weights.

I hope that helps!
-Tom T

From: phenixbb-bounces at phenix-online.org [phenixbb-bounces at phenix-online.org] on behalf of Yu, Hongjun [hyu at bnl.gov]
Sent: Tuesday, March 06, 2012 11:31 AM
To: phenixbb at phenix-online.org
Subject: [phenixbb] where is the fo-fc omit map?


It is so good that phenix can caculate sa-omit map so easily. But I am new to this. When I finish caculating, I can only get acess to 2fo-fc map whe I use coot to open the file: resolve_composite_map.mtz . How can I open the fo-fc omit map?  I notice this  from phenix.autobuild manual page "Note 1: be sure to use the weights in both resolve_composite_map.mtz and omit_region.mtz".  I don't understand this because the omit_regin.mtz seem to be the omit box I specify. Is this correlated with my problem?

Any advice is appreciated. Thank you in advance!

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