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

Re: [modeller_usage] Loop Modeling using only part of a PDB file

Robert Selwyne wrote:
Residues from PHE 1223 to LEU 1245 are missing from PDB:2RFN. I want
to use ONLY the residues from 382 to 406 in my template sequence
PDB:3LCK for loop modelling. Remaining part of the residues in the
target shouldnot be disturbed.

(2RFN) Target      : PHE 1223 to LEU 1245 (24 residues)
(3LCK) Template : ASP   382 to TRP  406   (24 residues)

Could you please tell me how to model this?

This is not what Modeller calls "loop modeling"; that is modeling a region that has no template. To do what you're asking you should use something similar to http://salilab.org/modeller/9v7/manual/node23.html

	Ben Webb, Modeller Caretaker
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage