Re: [modeller_usage] help--model-segment.py

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

jinlian05 AT lzu.cn wrote:
> after running the scripts, it appears some errors:
...
> KeyError: 'No such residue: 37:A'

Yes, that's the same error you reported before. Please read my previous 
post.

> The residue numbers in the model are really the same as residue numbers in the
> template.

No - they're not. You are building a single-chain model, so Modeller 
will not assign it a chain ID. And the residue numbers would only match 
if your alignment contained no gaps.

> After 'mod9v1 model-segment.py', it produce the 'tm-mrg.ini' and
> 'tm-mrg.scr'files, if the script is wrong, dose it produce results else?

You will also get one or more .pdb files if the script runs to completion.

> ps: is there any diffference between the .ini files and .pdb files?

Of course - the .ini file is simply the target sequence threaded onto 
the template structure. It is unoptimized.

	Ben Webb, Modeller Caretaker
--
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