Le 4 févr. 2010 à 04:37, Norman Zhu a écrit :
> hello there
>
> I am in the process of refining a protein structure complexed to DNA
> promoter site. I ran into difficulty as i try to move a few bases into
> patch of electron density that is obviously meant for them. dragging the
> bases with real space refine zone and/or regularize zone neither break open
> the phosphate back bone bounds or turn everything into knots.
> I know there is nothing wrong with the naming convention of my bases
> since I changed them from DT to Td after similar blog.
> Any suggestion on this matter would be greatly appreciated.
>
> Norm
>
Hi Norm,
Depending on the resolution of your data you may need to turn down the matrix weight in refinement parameters. I tipically put this down to 30 (compared to the default value of 60) and for really lower resolution (say 3 or worse) I may go as down as 20.
HTH,
-- Miguel
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