Hello crystallogrphy,
Using pdbset with the card
EXCLUDE SIDE
instead of
PICK N O CA C CB
would have the same effect.
Tim
On Fri, Feb 11, 2011 at 06:14:53PM -0500, Ed Pozharski wrote:
---
pdbset xyzin foo.pdb xyzout foofoo.pdb eof
PICK N O CA C CB
eof
---
should do it
On Fri,
Dear Hailiang,
you could dig through ftp://ftp.ccp4.ac.uk/ccp4/ to find the ccp4-version which
came with Refmac5.2 and compile it.
Cheers, Tim
On Sun, Feb 13, 2011 at 02:11:00AM -0500, Hailiang Zhang wrote:
Hi there:
I need a stand-alone excutable file of REFMAC of version 5.2. Just check
Hi there,
Was recently looking at a structure of an enzyme with AMP-PNP added to
the crystallization mix, and all I see is density for ADP. I was
wondering if hydrolysis of AMP-PNP to ADP is relatively common - either
as a result of extended time in crystallization or exposure of the
resultant
Hi Steve,
With my experience, it is (very) common to see AMPPNP is hydrolyzed to AMPPN
(supposedly) with my protein. Although the literature often reported AMPPNP
as a stable ATP mimic, such a luck wasn't true with my case, maybe same as
you. If you go to Sigma website where I purchased, it may
A Postdoctoral position is available in the Structural Biology
Laboratory in the Plant Biology Division at the Samuel Roberts Noble
Foundation, Ardmore, Oklahoma, USA, to study structures of proteins
involved in natural product biosynthesis, nutrient uptake, and gene
regulation by using
In doing some model building I want to move a domain of a protein
manually, as a rigid body, and see in real time continuous updates of
some distances from points on the domain to the rest of the protein (we
have cross linking data).
I dimly remember being able to do with this O,at least a
Hi Paul,
I used to use the following text to create a custom menu that I would
load into O (i.e. as a .omac file). The command I think you are looking for
is trig_refresh. Once you defined a distance and/or angle, activate the
trig_refresh and then as you move atoms/pieces around,
Hi Steve,
Funnily enough I just read the following paper today, which describes exactly
this phenomenon:
http://www.ncbi.nlm.nih.gov/pubmed/21093442
Is AMPPCP as sensitive to acid conditions? I would suspect not.
Best wishes
Derek
Hello Steve,
You can also check out this paper: Bystrom, Pettigrew, Remington and
Branchaud (1997) Bioorganic Medicinal Chemistry Letters, Vol 7 No 20
pp2613-2616. It describes the creation of AMPPCF2P, which I had
opportunity to use a few years back and it worked great!
Good luck,
Bryan
From:
A postdoctoral position in protein crystallography is available in Dr. Min Lu’s
lab at Public Health Research Institute Center, New Jersey Medical School,
University of Medicine and Dentistry of New Jersey, Newark, NJ.
The research mainly focuses on the three-dimensional structures and
Hi Patrick -
Just a thought: in a drop that's still equilibrating (i.e. one that's
actively nucleating/growing crystals), there will be convection currents,
caused by water diffusion out of the drop, protein switching from solution
to solid phase, temperature differences, etc. These currents
My five eurocents to the discussion ...
AMPPNP can also be specifically hydrolyzed by Serca1a, the Sarcoplasmic
Reticulum Ca2+-ATPase. Such cleavage was proven to be calcium-dependent meaning
that AMPPNP is used by the ATPase as a genuine substrate although with a very
slow kinetics compared to
Is it possible that the phosphates are just disordered rather than being
cleaved? It's always the case for inactive kinase-ATP or AMPPNP complexes
that the phosphates are not stabilized by Mg2+ or the residues in the
binding pocket and hence they become disordered and are not seen in the
electron
Once again, I've sent off a message only to one person that was intended for
the BB.
Begin forwarded message:
From: Charles W. Carter, Jr car...@med.unc.edu
Date: February 14, 2011 6:23:16 PM EST
To: Martin Picard martin.picard...@gmail.com
Subject: Re: [ccp4bb] AMP-PNP Hydrolysis
I take
Ravindra D. Makde
Scientific Officer E
High Pressure Synchrotron Radiation Physics Division
Bhabha Atomic Research Centre,
Trombay, Mumbai, India.
Tel: +91-22-25506754 (Res.),
The journey of a thousand miles must begin with a single step
- Chinese proverb
Hi all,
I apologize to all of you for my previous blank posting at CCP4BB; It happened
accidently.
I would appreciate your comments on oxidation of selenomethinone in stored
pellet
1.How long one can store Seleno-met expressed protein in bacterial pellet at
-80 degree C without significant
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