Hello,
I am using Qhelix, for the calculation of the orientation angles between
helices. when am running the demo its working,but when am uploading my pdb file
it is not working, can someone help me to resolve the problem.suggest me the
other softwares for the same.
Thank you.
Regards,
G
Hi Gajanan,
i never try Qhelix, but i use Chimera to do that. It's possible to mesure
angle, distance etc between helix.
Hope to help.
Nicolas
De : CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] de la part de Gajanan Arbade
[gajanan_pbi...@diat.ac.in]
Envo
Dear all,
registration is currently open for the postgraduate certificate
course in Protein Crystallography via the web at Birkbeck that begins on
Monday, October the 6th. It is for the duration of 1 year during which all
aspects of protein crystallography will be covered from the funda
Can someone point me to bulletpoint documentation on using the twin
refinement in CCP4?
Here's what I did.
1. I'm in space group P3, and the see a very clean diffraction pattern
that looks like one single lattice. Very clean spots, so merohedral
twinning.
2. You can use various programs to est
Dear colleagues,
This fall I start my own research group in the Physics Department at Simon
Fraser University in Vancouver, British Columbia. In the near future, I
hope to hire an exceptional, highly-motivated postdoctoral fellow to work
on computational structural biology. Please forward this a
Dear Berni,
DETWIN will detwin your Fobs, which can be done if the twin fraction is
sufficiently far from 0.5. However, as you discovered, you need to know the
twin fraction, which is by convention specified by the smaller fraction. Once
your data is detwinned, it should just be that, a file wi
Hi Bernie,
I agree with Herman. I think you will be all set if you simply change the "no"
twin refinement option near the top of the Refmac interface to "intensity
based" or "amplitude based" twin refinement. Refmac will determine the
appropriate twin operators/fractions and refine.
Best,
Chr
I am posting this position announcement on the behalf of Dr. Rakhi Rajan,
please direct any questions to her.
A Post-doctoral Research position is available in the laboratory of Dr. Rakhi
Rajan in the Department of Chemistry and Biochemistry at the University of
Oklahoma. The research is focus
Two PhD position are available at The Hamburg Centre for Ultrafast
Imaging to work on the following topics:
1.
Structure-Function Relationship of bacterial protein translocation
machines and their effectors (Supervisor Prof.Martin Aepfelbacher)
link to the announcement:
http://www.uni-hamburg
Hi Gajanan,
I am using Qhelix, for the calculation of the orientation angles between
> helices. when am running the demo its working,but when am uploading my pdb
> file it is not working, can someone help me to resolve the problem.
can't help with Qhelix, but...
> suggest me the other softwar
I am looking for a program that will map out the binding surface of a dimer
interface. For example if you have a PDB can you draw a colored surface
for the contact sites.
Specifically what I want to do is look at the interface for multiple dimer
parteners and show how they overlap.
Is that a prog
On 9/17/2014 11:51 AM, brian walker wrote:
I am looking for a program that will map out the binding surface of a
dimer interface. For example if you have a PDB can you draw a colored
surface for the contact sites.
Specifically what I want to do is look at the interface for multiple
dimer parte
Faculty position open at the University of Oklahoma.
Assistant Professor – Structural Biology/Natural Products. The Department of
Chemistry and Biochemistry (http://chem.ou.edu) at the University of Oklahoma
invites applications for a tenure-track faculty position at the rank of
Assistant Pr
Dear Anita,
As has been stated in another post I think, it is not a good idea to use a
guard column in front of a Superdex column or any gel filtration column. It
will dilute the sample and decrease the resolution and depending on the nature
of the aggregate and guard column it might just clog.
I have two small points to add to what has been amply said already.
First, those columns (like the pre-filter 6000) are nice to use with
ion-exchange or metal affinity columns on FPLCs, attached right after a
superloop. Not gel filtration columns. Second, for small samples loaded
on gel filtrat
Dear Community,
Recently, we could solve a structure of DNA/protein complex through MR
phasing. The data was initially indexed and scaled in P622 space group,
however owing to the incompatibility of a single DNA/protein complex to fit
in the ASU, it could not be solved in that space group (accordi
The tests that output twinning fractions are *not* diagnostic for twinning;
they merely estimate what the twin fraction would be if the data were in
fact twinned, which can only be decided on the basis of abnormal intensity
statistics. (Any version of Xtriage since July should state this more
clea
Sudipta,
keep in mind that programs that detect twinning (like Xtriage) estimate
twin fraction, while refinement programs (like Refmac, phenix.refine and
others) actually refine twin fraction. This is why a discrepancy between
estimated twin fraction and refined one should not terribly surprise yo
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