[modeller_usage] Re: Design of a chmieric protein from two known structures

[Modeller Caretaker <>]

On 3/15/23 10:49 AM, dafnikarr--- via modeller_usage wrote:
> i want to design a chimeric protein by fusion of subdomains
> of two known proteins. Do you know how should write the relevant
> scripts? And how to do the alignment? Should i use the multi template
> approach and use the two proteins as a template?

Yes, the normal way to do this would be to align your sequence with that 
of both templates. See https://salilab.org/modeller/FAQ.html#1

Nothing special is required in the script. The "simple" script at 
https://salilab.org/modeller/10.4/manual/node16.html would suffice, 
although you would need to list both templates in "knowns", of course.

	Ben Webb, Modeller Caretaker
-- 
             https://salilab.org/modeller/
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