Dear all,
Will you please bring this ad to the notice of whoever may be
interested ? Thanks very much.
Best regards,
Anirban
Post Doctoral Positions in Membrane Protein Structure and Function at
the National Institutes of Health (NIH)
The research group of Dr. Anirban Banerjee at the N
Dear all,
Discover how pathogens detox by interactively exploring the bacterial
antibiotic efflux system protein TolC in PDBe's latest Quips tutorial.
http://pdbe.org/quips?story=TolC
In order to expel toxic chemicals from the cell, Gram negative bacteria
must export them across both the in
Dear ccp4BBs,
I would like to inform you that the 5th edition of the Master and PhD in
Crystallography and Crystallization is now open.
The MCC offers an unique opportunity for the training of young researchers
that is normally absent or under-represented at graduate level despite its
imp
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Dear Niu,
as far as I can tell, all your parameters are correct and the
scattering term for f(s) you use is also correct. f(s) furthermore
matches very closely those tabulated in the Intl. Tables C Tab. 6.1.1.1.
My reproduction of the mentioned formu
On 14 September 2012 13:05, Tim Gruene wrote:
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> Dear Niu,
>
> as far as I can tell, all your parameters are correct and the
> scattering term for f(s) you use is also correct. f(s) furthermore
> matches very closely those tabulated in the Intl. T
On Thu, 2012-09-13 at 13:21 -0500, Jacob Keller wrote:
> Java anyone?!
Your subject line asks about scripting languages. I would think that
even the most inveterate Java advocate would hesitate before
recommending Java for the kind of informal scripting that you were
asking about :-)
> I've ac
Hi All,
I wanted some advice regarding mapping out Protein-peptide interaction. The
peptide is a 12 mer and the protein is 15kDa.
Invivo studies suggest that the peptide is binds the protein and helps in
transport.
Hence I feel it would perhaps transient binding.
I know that I should do ITC or BIAc
Dear all,
I have a question regarding the number of reflections in the output file of
XDSCONV, given a number of reflections in the input file.
I have noticed that the number of reflections in the output file is only ~50%
of the once accepted from the input file (ie the unique reflections)(inpu
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Hello Ian,
your article describes f(s) as sum of four Gaussians, which is not the
same f(s) from Cromer's and Mann's paper and the one used both by Niu
and me. Here, f(s) contains a constant, as I pointed out to in my
response, which makes the integra
On 09/14/2012 12:30 AM, Eric Bennett wrote:
Actually it's a bit of a hindrance. In Perl I can call the int function on
anything and get a sensible answer. In python if you call int on a string that
contains a floating point number the default behavior is that it will crash:
The sensible ans
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Dear Inge,
the log file shows the number of reflection RECORDS - I suppose the
difference is due to mtz-format storing (hkl) , F and DANO, i.e. mtz
does not have an extra entry for (-h -k -l), because it is stored in
the same record as (hkl).
Tim.
O
On 14 September 2012 15:15, Tim Gruene wrote:
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>
> Hello Ian,
>
> your article describes f(s) as sum of four Gaussians, which is not the
> same f(s) from Cromer's and Mann's paper and the one used both by Niu
> and me. Here, f(s) contains a constant
This may be tricky if binding is too weak, but could you use some
ultrafiltration with, say, 5kDa filters? The idea is that peptide will
not go through if it is associated with protein. Another option is size
exclusion, although that is not always straightforward as weakly bound
ligands may c
Dear All,
A quick info about CCP4 updates this week:
1. SCALA: fixed bug in Windows distribution, which caused printing NaN's and
zeros through all Scala output
2. ViewHKL: added a confidence measure for space group, removed bug causing
changing reflection image size with changing zone level,
Dear ccp4,
WE installed ccp4 6.3.0 GUI under Windows 7, and tried to run AREAIMOL on a
single coordinate file with protein and some nucleic acid. It crashes with
a "child killed segmentation violation" error, however the exact same input
coordinate file runs fine on ccp4 6.3.0 under MacOSX. So i
Dear Laurie,
A similar issue was found recently with the 64 bit Linux binary of
areaimol. After fixing that, we prepared a new binary for Windows in case
the same problem turned up. It looks probable that is indeed the case.
Could you please replace areaimol.exe on your system with the one from th
For the gel, it might be really hard to see the peptide as small things
tend to blur terribly--better to look for shifts in the protein band. If I
were you, I would do serial dilutions of the peptide at some constant, very
visible protein concentration. Also you have to be sure that the
protein/pep
Hi all,
I'm working on a protein structure which showed a special electrostatic
potential on its surface: positive on one end and negative on the other
end. I wonder to what extent I can say this pattern is determined by the
charged residues? If the residues are conserved, could I make a conclusio
14-Sep-2012 21:50 Rehovot
Dear Qiang
A good example of just such a case is acetylcholinesterase,
where homologous proteins have very similar electrostatic motifs,
with an very large electric dipole, ~1,700.
see three representative papers on this,
1. Ripoll, D. R., Faerman, C. H., Axelsen, P. H.
You could do homology modeling of several homologs using
http://protein.cribi.unipd.it/Homer/ . Then calculate the electrostatics of the
homologs.
Better though would be actual structures. How much identity do the homologues
have? If they are so close that homology modeling works, then you may
*Postdoctoral Research Associate in Structural and Molecular Biology in
Metropolitan Chicago – The Chicago Medical School, Rosalind Franklin
University.** * This is an NIH funded position for postdoctoral fellow for
structural studies on the mitochondrial ATP synthase. This project is
divided into
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