On 8/4/12 7:36 AM, James Starlight wrote: > I'm using lattest version of Modeller with the Easy Modeller GUI. > I'm modelling Green fluorescent protein (GFP) which consist of > chromophore heterogroup which is covalently lincked in the middle of > the sequence of that protein ( so this HET group is missing in the > fasta sequence of that protein- and during sequence-template alignment > I obtained GAP in the place where Chromophore group should be). > > How I could model this protein with inclusion of the Heterogroup in > the final model ?
If the HETATM residue is present in your template, you can simply set env.io.hetatm=True and add a BLK ('.') residue to the alignment in both the template and the sequence. Modeller will just copy the HETATM residue from the template to the model. There are examples of this in the manual and tutorial.
The "Easy Modeller" GUI isn't ours, so I can't help you with that.
Ben Webb, Modeller Caretaker