The center bit looks very much like phosphate - see what happens if one
is placed there
It may be educational to look at the maps in P1, just to see how much
trouble is caused by "noise accumulation on the symmetry axis"
On Thu, 2011-12-01 at 09:36 +, Martin Montgomery wrote:
> Posting on beh
I think a metal ion is unlikely given that the
nearest ligand(s) are Arg residues. I would lay money on an anion.
The central feature looks very much like a bicarbonate ion,
and is very similar to the bicarbonate ion bound in a generic anion
binding site near 2 Arg re
Well - first thing to do is an DANO map and see if it is a metal ion.
The relative height of the DANO peaks for S and anything else can give
you some clues.
Eleanor
On 12/01/2011 10:20 AM, Carlos Kikuti wrote:
It's bang on the Y axis I'd just ignore it (treat it as just noise) and
work
We had a similar case in our Eib structure (2xzr), with large peaks on a
3-fold. We initially thought it was noise, but Andrei Lupas convinced us to
look more carefully, and it turned out to be chloride ion.
You could do an wavelength scan at a beamline looking for anomalous signal at
the lo
It's bang on the Y axis I'd just ignore it (treat it as just noise) and
work on the rest of the model. There seems to be some trouble in other parts of
it. (Had a similar case but at 3.5 A data). I wonder what is the gap between
Rfree and Rwork.
And I'm curious for what more experienced pe
although it is hard to see in 3 2D views, some of the tentacles appear
connected to the protein, could they result from some of the long Lys or Arg
side-chains not following the 4-fold symmetry? i.e. alternative conformations?
The density on the 4-fold may be ions, solvent, some metal ion? "Noise
Posting on behalf of Katia Baranova (see below). Any suggestions gratefully
received!
Hello,
we have a puzzling density and hope someone has an idea of what it may be.
The pictures of it are here:
http://www.mrc-mbu.cam.ac.uk/sites/default/files/images/mystery/top.png
http://www.mrc-mbu.ca
