Re: [modeller_usage] No atoms were read form the specified input pdb file

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

On 12/13/2009 02:33 AM, james09 pruza wrote:
> While running the model-single.py, I am getting the following error---
> No atoms were read form the specified input pdb file since the starting
> residue no and/ or chain ID in Model_Segment <or the alignment file
> header> was not found; requested starting position residue no "0" chain "A"

OK, so in that case your alignment file header must be instructing 
Modeller to read from residue 0:A. See 
http://salilab.org/modeller/9v7/manual/node445.html for a description of 
the format (the example at that URL tells Modeller to read 5fd1 from 
residue 1:A through 106:A).

> My model file starts with residue no 4.

Sounds like you just need to edit the alignment file header to reflect this.

	Ben Webb, Modeller Caretaker
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