Thanks for all the suggestions, and I will try them immediately!
Best
Yang
> 在 2017年10月11日，上午8:55，Pavel Afonine 写道：
>
> And I should add this works just great! (given we are on the same page
> defining 'great').
>
> I used this for Cryo-EM model challenge; Nigel added this functionality at
Dear Markus, dear Michael,
the certificate from ccp4 appears to be signed by QuoVadis Ltd.
If I understand correctly, this is a trusted company, as of Firefox Version
32, according to the information at https://wiki.mozilla.org/CA/
Included_Certificates
Maybe you need to UPdate, not DOWNdate yo
And given that all these maps (Fo, Fc, and their differences)
are made without the F000 term and so have average value zero,
it is highly likely that Fc will be negative in the region
of the deleted subunit (solvent is the lowest density in the model
except for the chinks of vacuum between the ato
This is hard to understand/impossible, at least in terms of
simple 2fo-fc and fo-fc maps.
We can think of a difference map as the difference between two maps,
like fo-fc map = fo map - fc map.
There is no model in the region, since you deleted it,
so Fc=0, and Fo-Fc negative => Fo<0, so 2fo-fc can
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A round of refinement with simulated annealing followed by minimization
should address your concern.
Pavel
On Wed, Oct 11, 2017 at 4:48 PM, Karsten Dreifus
wrote:
> Dear all,
> I have a 120 aa protein. Matthews coefficient indicates 3 mol in asu.
> Molrep (template with 70 % seq identity) finds
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OK, on second thought it might not be a good idea to downgrade the browser:
On 10/11/2017 12:49 PM, Guillaume Gaullier wrote:
Hello Edward,
This website has some justification for using HTTPS everywhere:
https://https.cio.gov/everything
Downgrading a web browser is probably the worst advice y
I got a symmetry-related molecule in the ASU (mine was about 400 A off the
origin) and ran areaimol and the PDBe PISA server, and it worked on both! Got
all the same contacts as my DIFFMODE COMPARE run. Thanks Paul!
-Phillip
From: CCP4 bulletin board on behalf
Markus,
I had that problem for a short while with slightly older versions of Firefox,
but more recently (v54 - v56) it has not impacted any of the CCP4 sites.
Whether it is a Firefox correction, I don’t know, but it is fine for me. Note
that CCP4online is https://www.ccp4.ac.uk/ccp4online/
<
Set up a certificate via letsencrypt and move to https? It is quick,
easy and free.
https://letsencrypt.org/
Darren
On 11/10/17 18:34, Edward A. Berry wrote:
Is it because of this? Its been coming for a while now:
https://blog.mozilla.org/security/2015/04/30/deprecating-non-secure-http/
I
Is it because of this? Its been coming for a while now:
https://blog.mozilla.org/security/2015/04/30/deprecating-non-secure-http/
I see no reason why a website, dedicated to providing information
available to everyone, should be required to use https.
The web is too focused on e-commerce, where s
Try moving your molecule closer to the origin, by unit cell shift or choosing a
symmetry-related molecule.
(In Coot, you can do this by using Extensions -> Modelling -> Symm Shift
Reference Chain Here.
Paul.
Hello all,
I'm having some issues with crystal contact analysis of a new structure I've
solved. I initially tried to get the crystal contact areas using the PISA
server on PDBe, but the results did not include several crystal contacts that I
had identified myself using COOT. I tried running PIS
Dear all,
I have a 120 aa protein. Matthews coefficient indicates 3 mol in asu.
Molrep (template with 70 % seq identity) finds three NCS molecules
(the template model has only 1 chain as it is in different space
group). Now, REFMAC refines it to 25/30 % R/RFREE. I was just worried
about model bias
Oops, should have mentioned that - Cryoprotectant was PEG200, 20%.
Dear Veronica,
you can look at PDB educational resourses here:
http://www.rcsb.org/pdb/home/home.do#Category-learn
PDB file format explained here:
https://www.wwpdb.org/documentation/file-format-content/format33/v3.3.html
2017-10-10 19:51 GMT+03:00 V F :
> Dear CCP4ers
> I am looking preferably
If anyone from CCP4 website has noticed that...
Your connection is not secure
The owner of www.ccp4.ac.uk has configured their web site improperly.
To protect your information from being stolen, Firefox has not
connected to this web site.
(https warning message)
https://www.ccp4.ac.uk/ccp4onlin
A postdoctoral position is available in the group of Prof. Luca Pellegrini in
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co
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