Dear Shiva,
I was wondering if there is any IOS5 based app to display protein models,
which are not in public database, on Iphone.
Just yesterday, Dr. Ishitani at Tokyo university released
Cuemol for iOS.
http://itunes.apple.com/us/app/cuemol/id496236710?ls=1mt=8
Although not free, iMolview
Dear Debajyoti,
The way I check the chirality is to compare the fitted compound with the
structural formula. In coot, I rotate the ligand such that it has the
same orientation as in the formula and check that the out of plane
group goes in the right direction. However, it happens quite often
On 27/01/12 07:25, Debajyoti Dutta wrote:
How to check the presence of improper chirality of a fitted ligand.
With Coot, Validate - Incorrect Chiral Volumes
Is there any way to get rid of such error.
Extensions - Modelling - Invert this Chiral Centre.
Paul.
Hi Paul,
Does this also update the cif dictionary, or stays the change inside
coot?
Best,
Herman
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of
Paul Emsley
Sent: Friday, January 27, 2012 10:28 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb]
On 27/01/12 09:45, herman.schreu...@sanofi.com wrote:
Does this also update the cif dictionary, or stays the change inside
coot?
It stays within Coot. It does not update the cif dictionary - IMHO, that
would be a Bad Thing - maybe you are just experimenting.
It creates new set of
Dear Shiva
There is an app called Molecules for displaying models but that utilizes
coordinates from RCSB and pubchem.
You can also import your structure directly from itunes in pdb format
iMolview is not free but is very nice (better than Molecules :-)
cheers
Simone
On Jan 27, 2012, at
Molsoft has a free application:
http://www.molsoft.com/iMolview.html
As someone stuck maintaining an SGI for a user who resolutely refuses to
abandon Showcase or Ribbons for IRIX, I sympathize with those cases
where one simply has to get an old computer system to work.
Anyway, we don't have the relevant library file in our freeware
directories either. However,
1. Try room temperature mounts (as suggested by others)
2. Expose the hell out of the crystal (5 min) on home source or go synchrotron
3. Run your protein through another column (ion exchange) even if it looks pure
4. Try an additive screen
5. Try limited proteolysis or methylation
6. If none of
I second Michael's situation. I am stuck with getting the old SGI system to
work in this case - . So many thanks for the info Michael I will let you know
if that works out.
Hi Bill I have not seen the Zalman for sale at the price you give of $270. I
looked around a while ago for a good
Dear Crystallographers,
I cannot think why any of the various flavors of Rmerge/meas/pim
should be used as a data cutoff and not simply I/sigma--can somebody
make a good argument or point me to a good reference? My thinking is
that signal:noise of 2 is definitely still signal, no matter what the
Clarification: I did not mean I/sigma of 2 per se, I just meant
I/sigma is more directly a measure of signal than R values.
JPK
On Fri, Jan 27, 2012 at 11:47 AM, Jacob Keller
j-kell...@fsm.northwestern.edu wrote:
Dear Crystallographers,
I cannot think why any of the various flavors of
Dear CCP4-users,
Thank you all for your suggestions. Below is the compiled list of
suggestions for Iphone apps to display models:
1. Import structure directly from itunes in pdb format view in iMolview
(not free).
2. Cuemol for iOS: http://itunes.apple.com/us/**app/cuemol/id496236710?ls=1;
Hello All,
Do any of you RNA structural biologists know what is the 3 letter code for
1'-deoxyribofurnaose-5'-phosphate (abasic site in RNA)? I found that the
1'2'-dideoxy is 3DR, but could not find a lead on the 1'-deoxy. I scoured
HIC-UP to no avail, which I think is the most comprehensive
On Jan 26, 2012, at 11:00 PM, Shiva Bhowmik wrote:
Dear All,
I was wondering if there is any IOS5 based app to display protein models,
which are not in public database, on Iphone. There is an app called Molecules
for displaying models but that utilizes coordinates from RCSB and pubchem.
Hello All,
Two people named Rob told me that the the 3 letter code is N.
http://ligand-expo.rcsb.org/reports/N/N/index.html
Coincidentally, the old 3 letter name is ROB.
Thank you for your help!
James
On Fri, Jan 27, 2012 at 2:38 PM, James Stroud xtald...@gmail.com wrote:
Hello All,
Dear BioSAXS users,
Beamtime at MacCHESS will be available during the Spring running period (March
7-March 27) for BioSAXS.
To apply for time, please submit an online express-mode proposal at
http://express.chess.cornell.edu/EM_form.php
Under Choice of experimental technique specify Other
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