[phenixbb] using reference model with polyA chain.

[Jeff Headd]

Hi Francis,

You will still have restraints on the backbone, you just won't be able to
use rotamer outlier correction, which is what those errors are reporting.
If you want to silence those errors, you can turn outlier correction in the
options.

Jeff


On Tue, Nov 19, 2013 at 7:03 PM, Francis Reyes
<Francis.Reyes at colorado.edu>wrote:

> I'm refining a structure ( at low res ), so I trimmed off all the side
> chain atoms from my model while my reference model still has these chains.
> I'm receiving errors like...
>     ----------Correcting rotamer outliers to match reference
> model----------
>
> ** evaluating rotamers for working model **
>   A 502  ILE is missing some sidechain atoms, **skipping**
>   A 504  LYS is missing some sidechain atoms, **skipping**
>   A 505  VAL is missing some sidechain atoms, **skipping**
>
>
> I don't care about the side chain atoms, but I'd still like the reference
> model restraints to provide secondary structure. Does "**skipping**" mean
>  that the reference model is no longer being considered for the particular
> residue? Or will I still retain my secondary structure from the reference
> model?
>
> Thanks,
>
> F
>
>
> ---------------------------------------------
> Francis E. Reyes PhD
> 215 UCB
> University of Colorado at Boulder
>
>
>
>
>
>
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