By the way, I would recommend running simulated annealing with each
composite omit map you generate to help in overcoming model bias.
-Daniel
On Sat, Nov 10, 2018 at 9:31 PM Daniel M. Himmel, Ph. D. <
danielmhim...@gmail.com> wrote:
> Anandhi,
>
> Assuming the data reduction went well, and
Anandhi,
Assuming the data reduction went well, and you're in the right space goup,
there could be a lot of model bias in your structure stemming from the
starting model.
There are a lot of things to try. I would
set all the B-factors to an artificially low B-factor to help de-mask
errors.
I am currently trying to solve two datasets of two different protein-protein
complexes. One of the proteins is common to both complexes and there is a
deposited structure in the PDB (100% identical). The other proteins currently
have not been solved and share ~50% identity between them. Both
Dear Michael,
On Sat, Nov 10, 2018 at 9:56 AM Michael Jarva wrote:
>
> Dear ccp4 community,
>
>
> I have recently been working with a structure that has an Asparagine that
> makes a planar stacking connection with a Tryptophan ring
> (pep_ASN-TRP_v2.png), that seem to be a true pi-stacking
Hi Michael:
It always makes me happy to see that there are people who care about this.
3.3 to 3.4 Å should be an ideal distance for this, and, as you note, the lone
pair
residing on the (sp^3-hybridized) nitrogen would have to be oriented for
favorable overlap, which is a bit harder to deduce
