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Re: [modeller_usage] dna modelling



rathankar rao wrote:
i need an important information on modelling. i have tried modelling protein sequences but now that i would like to know whether dna could also be modelled using modeller and if yes how can it be done. are there any new files which i have to download or import it from the package itself.

Modeller can model any residue which is in your template; there's nothing special about DNA in this regard. If you just want to treat it as a rigid body, use a BLK ('.') residue in your alignment. If you want to treat it as a 'real' residue, then you will first need to edit modlib/restyp.lib and add suitable 1-letter codes (rather than #) for the four bases, and then use these codes in your alignment to match the DNA residues in your template and model.

	Ben Webb, Modeller Caretaker
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             http://www.salilab.org/modeller/
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