<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Esmael,<div><br></div><div>You can do that with a script file like this to remove density near coords.pdb from the map in mymap.mtz</div><div><div><br></div><div>#!/bin/csh -f</div><div>phenix.resolve<<EOD</div><div>hklin mymap.mtz</div><div>labin FP=myFP PHIB=myPHIB FOM=myFOM</div><div>model coords.pdb</div><div>mask_map</div><div>EOD</div><div><br></div><div>Your masked map coeffs will be written to masked_map_coeffs.mtz .</div><div><br></div><div>All the best,</div><div>Tom T</div><div><br></div><div><div>On Jul 8, 2010, at 1:25 PM, esmael wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Hi,<br><br>I am working with a protein that has many ligands; I need a density map in the "MTZ" format without ligands. Is there a way to do this?<br><br>Thanks a lot,<br>Esmael<br><br><br>_______________________________________________<br>phenixbb mailing list<br><a href="mailto:phenixbb@phenix-online.org">phenixbb@phenix-online.org</a><br>http://phenix-online.org/mailman/listinfo/phenixbb<br></div></blockquote></div><br><div apple-content-edited="true"> <span class="Apple-style-span" style="font-size: 12px; "><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><div><div><div><div><br>Thomas C. Terwilliger<br>Mail Stop M888<br>Los Alamos National Laboratory<br>Los Alamos, NM 87545<br><br>Tel: 505-667-0072 email: <a href="mailto:terwilliger@LANL.gov">terwilliger@LANL.gov</a><br>Fax: 505-665-3024 SOLVE web site: <a href="http://solve.lanl.gov">http://solve.lanl.gov</a><br>PHENIX web site: http:<a href="http://www.phenix-online.org">www.phenix-online.org</a><br>ISFI Integrated Center for Structure and Function Innovation web site: <a href="http://techcenter.mbi.ucla.edu">http://techcenter.mbi.ucla.edu</a><br>TB Structural Genomics Consortium web site: <a href="http://www.doe-mbi.ucla.edu/TB">http://www.doe-mbi.ucla.edu/TB</a></div><div>CBSS Center for Bio-Security Science web site: <a href="http://www.lanl.gov/cbss">http://www.lanl.gov/cbss</a><br><br></div></div></div></div><br></div></div></span><br class="Apple-interchange-newline"> </div><br></div></body></html>