Dear Jesse,
The current version of BALBES can only find MR models of a protein
complex from its own internal database. I guess in your case, BALBES
did not find the complex models (assembly as shown on the balbes log
file). What you expect BALBES to do is under developing within the new
version of BALBES. We hope we can deliver that soon.
But maybe you can continue your work for now by running some MR programs such
as MOLREP, using the solution found by BALBES as the fixed model.
Thanks,
Fei
2009/1/29 Jesse Sundlov <[log in to unmask]>:
> Thank you Fei for your input. Your response inspired me and I found the
> error I was making (a poorly truncated PDB file).
>
> However I have another question regarding BALBES for the brains out there.
>
> As I mentioned before, I have a two protein complex with a nice homology
> model for Protein 1 and the structure of Protein 2 is known (we're using
> only one domain of Protein 2 in our complex).
> Balbes finds a solution using the homology model of Protein 1 as an input
> (Rfree ~ .40) , but it stops there. I was under the impression that the
> program would then go ahead and try to fit Protein 2 using this newly found
> solution. It doesn't find a solution when using just the known structure of
> Protein 2 as a model. Is there a way to accomplish this?
>
> Sincerely,
> Jesse
>
>
>
>
> On Wed, Jan 28, 2009 at 1:25 PM, Dr. F Long <[log in to unmask]> wrote:
>>
>> Dear Jesse,
>>
>> In both cases, there are some log files under, e,g.
>> Test/process_details/
>>
>> If you can make tar.gz files on these log files and send them to us.
>> We can analyse what happened in your processes.
>>
>> Thanks,
>>
>> Fei
>>
>> Dr Fei Long
>> Structural Biology Laboratory
>> University of York
>> Heslington
>> York YO10 5YW UK
>>
>
>
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