fitting a protein inside an EM reconstruction
Hi! I have been trying to fit a protein into an EM reconstruction. methodology I display my protein of interest and EM map on the same window. I select the protein and if I click fit. Problem 1. Nothing happens!! If I move the protein the whole frame moves as a whole. 2. Also is it possible to click drag the protein into the envelope and then give the fit command such that the program will take over the fitting. As I have 3 proteins to fit into this EM Map. Thanks Jayant Jayasundar Jayant James Postdoc, Department of Veterinary and Comparative Anatomy, Pharmacology and Physiology(VCAPP), Washington state university, Pullman 99164-6520, USA. http://www.chick.com/reading/tracts/0001/0001_01.asp Phone office:335-5937, Cell:1-509-432-5790
Hi Jayant, The reason that pressing the Fit button on the Fit Models in Maps dialog is not doing anything is because you have no atoms selected. A warning about this that says "No atoms selected" appears in the dialog. The fit only applies to models with selected atoms because that allows you to fit one PDB model at a time when you have multiple ones opened. The fit tool only does a local optimization -- relatively small rigid rotations and shifts -- so you have to first move the PDB model by hand to approximately where you want it. How to do this is described in the Guide to Volume Data Display: http://www.cgl.ucsf.edu/chimera/tutorials/volumetour/volumetour.html#fitmode... Tom
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Thomas Goddard