Re: [modeller_usage] sequence file produced is different from the one shown in the tutorial

[Modeller Caretaker <modeller-care@ucsf.edu>]

On 9/21/12 1:26 PM, Sajeewa Pemasinghe wrote:
> In the field 5, it says +238 whereas in the tutorial, in the resulting
> 1qg8.seq file it shows 256. Have I done any mistake? Would the above
> sequence file work just as fine as the one shown in the tutorial?

The PIR alignment format is described at
http://salilab.org/modeller/9.11/manual/node476.html

"+238" means "read 238 residues from the PDB file".
"256" means "read until you reach the residue numbered "256" in the PDB 
file".

They should both result in the same thing. I suggest you run it and see.

	Ben Webb, Modeller Caretaker
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