Dear all,
can someone point me to something similar to Metal coordination sites in
proteins (http://tanna.bch.ed.ac.uk), but describing anions (I'm mainly
interested in chloride-binding sites)?
Thank You,
Albert
--
Albert Guskov,
Freie Universitaet Berlin
Fachbereich Biologie, Chemie, Pharmazie
Dear CCP4 community,
Sorry for this off-topic protein purification problem.I'm trying to purify
an immunoglobulin-like beta sheet protein with a c-terminus HIS construct.
The protein expressed both in the supernat and pellet ( majority ). I
purified the supernat and after run gel filtration,
I have been interested in this topic as well, so could any responses that are
not also addressed to the BB be sent to me as well?
Thanks very much,
Jacob Keller
***
Jacob Pearson Keller
Northwestern University
Medical Scientist Training Program
Dallos
Hi Jenny,
there are probably as many 'folding enhancers' as there are crystallization
additives. Arginine might only be the most popular, followed by things like
proline and other amino acids. The mode of action of those can partly be
explained by their mild chaotropic properties. For a
Hi, my refinement (Refmac_5.2.0019) in sp. grp. C2 with 2 TLS groups,
bulk solvent, and overall anisotropic scaling gives the following
output:
-
Overall : scale =1.143, B = 0.148
Babinets bulk
There is a number of 'defined' anions known from structures of halorhodopsin
and the cores of coiled-coil proteins often show them as well.
--
Kornelius Zeth
Max Planck Institute for Developmental Biology
Dept. Protein Evolution
Spemannstr. 35
Hi Albert,
Please refer to the following paper (and references therein) for a description
of the four chloride
located in the nucleosome structure..
1: Davey CA, Sargent DF, Luger K, Maeder AW, Richmond TJ.
Solvent mediated interactions in the structure of the nucleosome core particle
at
1.9 a
Jenny
have a look at our REFOLD database: http://refold.med.monash.edu.au
you can find several refolding protocols in there for immunoglobulin folds
(you can blast
your sequence against the refold database)
cheers
ashley
--
Ashley Buckle Ph.D
NHMRC Senior Research Fellow
The Department of
I should like to point out here that almost ANY protein will pick
up something from the crystallization solution (cations, anions).
Unfortunately, in the majority of cases these partially occupied
ions will not be seen or will be mistakenly interpreted as water
molecules. One way to 'see' such
On 16:05 Thu 10 Jul , Christian Rausch (Biol. Chemie) wrote:
We have tried the following installation scripts from Nvidia:
NVIDIA-Linux-x86-173.14.05-pkg1.run
NVIDIA-Linux-x86-173.14.09-pkg1.run
And tried it with the following kernels:
vmlinuz-2.6.18-92.1.1.el5PAE
Hi,
1. the same image in jpg or png format occupies a mere 180 - 300 kB. It's
nice to be considerate of other people's bandwidth especially since you're
asking for help
2. how do you know it's a covalent modification? Anything on MS to confirm
that?
3. this reminds me of
Hi Jenny,
check on non-reducing SDS PAGE whether your disulfide bond (I assume
there is one) is correct, i.e. you have monomeric protein on SDS-PAGE.
If there are disulfide linked oligomers, try expression in Origami
strain at lower temperature, e.g. 25 deg C.Another possibility is to
direct
There is a bug in pdbset: when you output a sequence (using SEQU PDB),
the residue names are shifted to the left by one position. Here is how
it looks like:
In PDB-file downloaded from the PDB:
SEQRES 5 A 171 ALA THR CYS ...
PDBSET output:
SEQRES 5 A 171 ALA THR CYS ...
I
Is this just a consequence of old/new conventions for the SEQRES records?
If so, send a feature request to ccp4, asking for an option to be added to
pdbset.
Pete
-Original Message-
From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of Ed Pozharski
Sent: Thursday, July 10,
I'm running flexWarp on a MacBook Pro and on a Linux box. The program goes
through several
cycles and then gives the following errors when trying to improve an MR
solution:
If I start from the PDB file as is
ERROR
Exception class : 'IndexError'
Message : 'no args'
BackTrace (limited to level
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