AntonioLeung wrote:
I am a novice working on protein structure. When I pick water using
COOT, too many waters picked, filling in the whole cell.
"Too many" - hmm. Did you, by any chance, peak-search a difference map
without first changing the default sigma cut-off to (say) 3.5?
Paul.
Thanks Frank, Luke forgot to tell me that he had actually implemented
this !
For those wishing to use this option, the "Matrix" line has to be
dragged and "dropped" on the "Sector" line of the segment of data that
you want to assign the matrix to, NOT to the Matrix line of that
sector.
I ag
This is posted on behalf of Dr. Fiona Marshall at Heptares. The
Heptares web site for applications is:
http://home.btconnect.com/heptares/vacancies.html
Please respond using the web site or the Email address below, not to me.
Andrew Leslie
Structural Biologist/Crystallographer
Heptares is a
Mariah,
you may want to try PISA at
http://www.ebi.ac.uk/msd-srv/prot_int/pistart.html
Eugene
On Mon, 17 Aug 2009, protein.chemist protein.chemist wrote:
Hello All,
Can anyone tell me what are the programs used to find out the different
interactions in a protein.
I am talking about both int
Dear Arefeh,
Arp/warp works with standard space groups, therefore you have to reindex P21221
to P21212. In this
message from Anastassis Perrakis you can find some advice:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=ind0709&L=CCP4BB&T=0&F=&S=&P=100954
Michele
Arefeh Seyedarabi wrote:
> Hi,
Hi,
look in our servers list for interaction and contact analysis
http://bip.weizmann.ac.il/toolbox/structure/tertiary.htm#contact
pay attention to PISA which is very good for intermolecular and PIC
for intra.
Good luck
Rotem
On 17 Aug, 2009, at 20:13, protein.chemist protein.chemist w
I tried to scale the two datasets in scala after combining the two
unmerged datasets with the sort MTZ program, but scala thinks the two
datasets are from the same crystal. The problem is the unit cell
constants are not identical. See scala output below.
* Number of Datasets = 2
* Datase
Dear all,
This is a reminder and some news for the meeting:
"What is a macromolecular Complex? Shades of Meaning Across Cellular,
Systems, and Structural Biology"
http://xtal.nki.nl/Oct2009
- Registration closes on Monday 7th September at 12:00 noon. No
exceptions after the deadline.
-
Thank you all very much for your advice. I will reindex my data to P21212 in
order to use Arp/Warp.
Best regards,
Arefeh
Arefeh Seyedarabi, PhD
Postdoctoral research assistant
School of Biological and Chemical sciences
Queen Mary, University of London
Mile End road
London
E1 4NS
Based at Joseph
Dear CC4BB users,
Does any one know how to get SOMoRe for molecular replacement? The old link
and email
to Diane Jamrog no longer functions. Also, does any one have a Mac Intel
version?
Best regards,
Scott
*
Scott T. R. Walsh, Ph.D.
C
Hi Hari,
This is slightly different, and was indeed a bug in imosflm version
1.0.0. In the new version, released last week (1.0.3) this bug is
fixed, so that if images from multiple sectors are used in indexing,
the same matrix is defined for all those sectors (ie they will not be
marked as U
Hi everyone,
I am trying to use density modification at rather low resolution (4-5A ) for
an RNA structure. My first time ever with RNA.
I usually use Histogram matching as part of the density modification scheme
in DM. But this method is based on density distribution of protein maps I
think.
Is h
Hi Peter,
Histogram matching works well for RNA structure, but be aware that
density modification in general can be very tricky at low resolution.
If by any means you can exploit averaging, e.g. multicrystal averaging
of non-isomorphous crystals, it will probably be very helpful. It will
Peter Grey wrote:
Hi everyone,
I am trying to use density modification at rather low resolution (4-5A )
for an RNA structure. My first time ever with RNA.
I usually use Histogram matching as part of the density modification
scheme in DM. But this method is based on density distribution of
pro
Hi everyone,
I am looking for a method for expressing selenomethionine labeled protein in
insect cells. Can anyone point me to a suitable protocol ?
Additionally, is anyone aware of companies that may provide this service
for a fee ?
Thanks
Hi Riya-
Expression Systems has a protocol for SeMet incorporation (Click on the
"Selenomethionine Incorporation" pdf file at
http://www.expressionsystems.com/?mvcTask=documents) and they advertise that
they do just about anything you would want to do with insect cells (see
http://www.expressionsys
We have unsuccessfully used in the past (by that I mean less than
stellar incorporation) the Gibco/Invitrogen Sf900-SFM w/o Met/Cys media.
Then we saw Karin Reinisch's paper (Dong et al, Immunity, 2009) and they
used Expression Systems' ESF921. This protocol works for us.
Engin
On 8/18/09 2:4
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