Re: [modeller_usage] loop missing in a crystal structure

On 4/5/14, 8:05 AM, flavio seixas wrote: > I'm interested in using a crystal structure deposited in the PDB > (structure A). However, there are two important loops missing. > There is another homologous structure B from another source organism, > where those loops are well defined inside electron density. I like to > use the experimental data from this template B to model the missing > loops in the structure A.

Why not just model using both structures as templates? If you're worried that structure B will "mess up" the model in the non-loop regions, align it just with A in those regions and just with B in the loop regions.

Ben Webb, Modeller Caretaker