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yes, the lack of electron density is most likely the cause the these red
bars (unless you set the map level rather high, but at the default
chosen by coot that should be fine).
yes - if you don't see electron density you don't have experimental
evidence of the atom positions, so it is best to delete them.
On 03/01/2012 03:26 PM, Uma Ratu wrote:
> I run my model in Coot to do "Temp Fact Variance Analysis".
> There are red bars from the B-factor Variance graphy.
> I click each red bar to exam the residues in Coot. Many of these residues
> do not have the electronic density on their side chains, especially Lys
> Here is my questions:
> 1. The lack of electronic density is the cause of these red-bars?
> 2. How do I fix them? delete the side chains?
> The diffraction data is 2A, and data completness is 98.8%.
> Thank you for comments
Dr Tim Gruene
Institut fuer anorganische Chemie
GPG Key ID = A46BEE1A
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