Here's one I made earlier
Phil
MLY.cif
Description: Binary data
On 24 Apr 2009, at 23:09, Engin Ozkan wrote:
Hi everyone,
We just realized in the lab that the dimethyl-lysine in the ccp4
monomer database (MLY) has planar tertiary amines, instead of
trigonal pyramid with ~109º degree a
Hi,
In a new structure we observed a hydrogen bond between an aspartate side chain
and a main chain carbonyl group. Because both of them are electronegative, I am
puzzled.
My questions are: does this hydrogen bond make sense at all? any precedent for
such a hydrogen bond?
I would appreciate
Jacob Keller wrote:
Dear Dr. Holton and CCP4BBers,
Are you saying that a resonant event is always accompanied by a
fluorescence event?
no.
For example, with selenium only ~59% of the core holes decay by emitting
a fluorescent x-ray. The rest by emitting an Auger electron. The
latter seldo
> On Friday 24 April 2009 11:53:27 Jacob Keller wrote:
> > Aha, so I have re-invented the wheel! But I never made sense of why
> f' is
> > negative--this is beautiful! Just to make sure: you are saying that
> the real
> > part of the anomalous scattering goes negative because those photons
> are
>
Hi everyone,
We just realized in the lab that the dimethyl-lysine in the ccp4 monomer
database (MLY) has planar tertiary amines, instead of trigonal pyramid
with ~109º degree angles (which we have fixed for our purposes). Is
there a place to report such matters to, or is this a good enough pla
On Friday 24 April 2009 11:53:27 Jacob Keller wrote:
> Aha, so I have re-invented the wheel! But I never made sense of why f' is
> negative--this is beautiful! Just to make sure: you are saying that the real
> part of the anomalous scattering goes negative because those photons are
> sneaking ou
I'm running watertidy to move all waters to the (symmetry-related)
position closest to my protein. One protein chain (A), 144 waters (chain
W).
Trouble is, one round of watertidy doesn't move many of the waters
(e.g., a water only 2.7 Ang. from a carbonyl oxygen of a symm-related
protein was not m
Aha, so I have re-invented the wheel! But I never made sense of why f' is
negative--this is beautiful! Just to make sure: you are saying that the real
part of the anomalous scattering goes negative because those photons are
sneaking out of the diffraction pattern through absorption-->fluorescenc
On Friday 24 April 2009 11:28:16 Jacob Keller wrote:
> Dear Dr. Holton and CCP4BBers,
>
> Are you saying that a resonant event is always accompanied by a fluorescence
> event? If that were true, wouldn't the resonant event end up manifesting as
> *negative* scattering component from the resonant
Dear Dr. Holton and CCP4BBers,
Are you saying that a resonant event is always accompanied by a fluorescence
event? If that were true, wouldn't the resonant event end up manifesting as
*negative* scattering component from the resonant atom, due to the
elimination of an otherwise-scattered photo
Title: Re: [ccp4bb] Cryo-protectant
First of all, you need to find out if crystals you grew have similar
quality before you conclude poor diffraction is due to cryoprotectant
solutions. As others have suggested, you can test crystals using
capillary mounting method. Second, there are a lot mor
Thanks all for your kind suggestions. Thanks for Janet for pointing out that
I actually mess up with some terminology. The microbatch I mentioned is not
real "microbatch". What I meant to say is the 3 subwell plates with 96
wells, from Greiner (CrystalQuick Cat.-No.: 609101). So what i'm trying to
Rui
Microbatch - which I take to mean crystallization under oil with no
reservoir - has many advantages, but with some robots it's a little
slower to set up (20 mins on ours). So most people I know start off
with vapor diffusion and only move to microbatch if they have problems
with VD.
I
Begin forwarded message:
From: Benjamin Blonder
Date: April 24, 2009 9:39:14 AM PDT
Subject: New version of Structure (protein screensaver) released
Hi everyone! At some point in the past you've written to me, asking if
Structure would be re-released for Intel macs. I'm pleased to let you
know
Hi Liew,
There have already been some very good suggestions. I agree with Tim
Gruene that a great starting point is to test the diffraction properties
of your crystal at room temperature. This can serve as a baseline for
comparing/evaluating cryoprotecting agents and methods.
You can als
Hi all
Thanks for your precious suggestions and ideas.
The crystallization buffer condition is 0.1M BIS-TRIS pH 5.5, 0.2M MgCl.6H2O,
35% PEG3350
Now, my crystal seem ok in 20% ethylene glycol, but only after a couple minutes
of dehydration at room temperature. For sure, i will try other cryopr
What is the crystallization condition?
On Fri, 2009-04-24 at 11:46 +0800, Liew Chong Wai wrote:
> Hi all,
>
> Good day
> I used MPD as a cryoprotectant (20%, 30%) for my crystal. However,
> there is no diffraction signal at all. Without the MPD cryo, i still
> manage to get 5angstrom, but it ha
I usually try the following, in order:
1. Transfer crystals to mother liquor + 30% glycerol or ethylene glycol
(sometimes lower depending on crystallization solution). This did not
work for you.
2. Transfer crystals to mother liquor + 30% glucose (or try sequential
soaks in M.L. + 15% and then
> -Original Message-
> From: owner-ccp...@jiscmail.ac.uk [mailto:owner-ccp...@jiscmail.ac.uk]
On
> Behalf Of Eleanor Dodson
> Sent: 23 April 2009 15:59
> To: Kumar
> Cc: CCP4BB@jiscmail.ac.uk
> Subject: Re: [ccp4bb] Twinning or not?
>
> Look at the moment plots after scalepack2mtz; if thes
Hallo,
there is quite a large number of cryo-protectants other than MPD or
glycerol. If I remember correctly, the Methods of Enzymology, (176) list
some of the, and you might check the recipes of the Hampton cryo screen.
As suggested by Li, you can try oils. You can use small sugars (fructose
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