Re: [modeller_usage] Model of the GFP

[Modeller Caretaker <>]

On 6/24/13 1:50 AM, James Starlight wrote:
> _modeller.SequenceMismatchError: get_ran_648E> Alignment sequence not
> found in PDB file:        1  ./input.pdb (You didn't specify the
> starting and ending residue numbers and chain IDs in the alignment, so
> Modeller tried to guess these from the PDB file.) Suggestion: put in the
> residue numbers and chain IDs (see the manual) and run again for more
> detailed diagnostics. You could also try running with
> allow_alternates=True to accept alternate one-letter code matches (e.g.
> B to N, Z to Q).
>
>
> How I could fix it ?

Did you try doing what the error suggests? You didn't include input.pdb, 
so I can't be sure, but it's quite possible that it doesn't have a chain 
with no ID (as you specified in your alignment) but that it has an "A" 
chain.

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