On Tue, Nov 23, 2004 at 04:24:55PM +0200, vivek sharma wrote: > To generate a model containing Hydrogen atoms, is it necessary that > templates should have Hydrogen atoms too or these will be modeled by > MODELER itself? No, the templates do not need to have hydrogen atoms. See the examples/all-hydrogens directory in the Modeller distribution for an example of building such a model. Bear in mind that while Modeller will construct hydrogen atoms for you, their position is determined solely by the parameter files; no homology-derived restraints are used. Ben Webb, Modeller Caretaker -- modeller-care@salilab.org http://www.salilab.org/modeller/ Modeller mailing list: http://salilab.org/mailman/listinfo/modeller_usage