[Date Prev][Date Next][Thread Prev][Thread Next][Date Index][Thread Index]

Re: [modeller_usage] building missing residues



On 4/8/13 2:22 AM, Mary Varughese wrote:
a protein i am dealing with has some missing residues. I am trying to
build it with modeller. How could i verify the structure generated?
This is simply a comparative model, where the structure with the missing 
residues is your template. So you'd verify the structure in the same way 
as any other comparative model, e.g. using an assessment method such as 
normalized DOPE.
Also the remarks says, CA 5% of the side chains are poorly defined and
are currently modelled as alanines.
If the correct sequence is available in the SEQRES records, you should 
probably use that in your model.
	Ben Webb, Modeller Caretaker
--
modeller-care@salilab.org             http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage