Hi Abhi,
That depends a lot on which questions you want to answer. Absolute B-factors are not something I would try to interpret too much. You could look at the distribution of relative B-factors around your ligand to compared to the rest of the protein to say something about flexibility (provided there are no huge errors in your model), but in a qualitative way. Quantitative analysis would be rather debatable.
Cheers,
Robbie
> -----Original Message-----
> From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of
> abhimanyu singh
> Sent: Tuesday, August 23, 2016 12:56
> To: [log in to unmask]
> Subject: [ccp4bb] Average B-factor comparison
>
> Dear all,
>
> I would like to get your opinions and suggestions on whether average B-
> factor, absolute or the trend, observed in a protein region among several
> liganded structures of the same protein comparable without any
> normalisation? Since all datasets are isomorphous, processed identically and
> structures were refined with the same program and strategy, my
> understanding is that such a comparison would be acceptable.
>
>
> Thank you.
>
> Regards,
> Abhi
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> --
>
> Abhimanyu Kumar Singh, PhD
> Post-doctoral Research Associate
> School of Biosciences
> University of Kent
> Canterbury CT2 7NJ, UK.
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> http://www.pde4npd.eu/
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