Dear Tom
in addition to the very valuable input you have received already, I would like
to point out that based on the fact that the of your data is above
3 in the highest resolution shell, you will likely be able to push the
resolution limits of your analysis to go beyond 1.4 angs resolution.
Hi Tom,
some suggestions for you:
You should calculate a selfrotation function and see if you can learn something
from it.
You should definitely run Matthews Coefficient and see if you get a brilliant
idea there
And congratulations to your first crystal structure it looks really great, for
a
But the amount of time spent on turning a protein into a publishable structural
data is pretty much same, if not larger. There are no low hanging fruits any
more.
On Mar 27, 2013, at 11:50 AM, Frank von Delft wrote:
> Is it too much to dream that Tom has set a trail-blazing precedent and
> de
Dear Tom,
It goes to show...there are sinners and saints in all walks of life!
C'mon, there is a lesson to be learnt in this somewhere!
Amen
Ravi
On 27/03/2013 18:32, Anastassis Perrakis wrote:
I think it will be the first time in 15 years I will disagree with Tim.
I personally found the postin
Is it too much to dream that Tom has set a trail-blazing precedent and
demonstrated to us all how unnecessary it is be anal about our
oh-so-precious data and structures that in the year 2013 are almost
completely useless without a huge dollop of other experimental data...?
On 27/03/2013 18:3
I think it will be the first time in 15 years I will disagree with Tim.
I personally found the posting of Tom van der Bergh irritatingly disrespectful
in many levels.
1. It does not respect my mailbox capacity
2. It does not respect CCP4 developers posting output from phenix.refine
3. It does n
Dear Tom,
I think that we've all actually been rather gently teasing you - admittedly a
difficult concept to put across via the medium of e-mail.
In fact, I think we've all offered sensible constructive suggestions, and
indeed pointed out what you should try next.
Apologies for any inadvertent
Tom,
Welcome to the protein crystallography community. I hope you take all
the teasing in good humor. And a few protocol lessons about sharing
data, etc. By now you have discovered that structure factor files and a
possible MR model are like catnip to structural biologists. I learned
this whe
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Dear so-far-posters,
I do not know Tom Van den Bergh, nor do I know his background, nor the
history of the data, nor the reasons why he may have sent it to this
list (although I think he did it to ask for help), but I find these
answers irritatingly d
we should all chip in a water molecule or two and the second author becomes
"the CCP4 community"….
On 27 Mar 2013, at 17:22, Antony Oliver
wrote:
> At the risk of being somewhat cheeky - perhaps I could claim second author?
> I too have successfully solved the structure - and I totally concur
At the risk of being somewhat cheeky - perhaps I could claim second author?
I too have successfully solved the structure - and I totally concur with Phil.
Placing a second molecule in the asymmetric unit, essentially resolves the
perceived R-factor problem.
A good thorough manual inspection and r
Since this is now public domain knowledge and if this gets ever published, Phil
has my vote to be the first author!
Petr
On Mar 27, 2013, at 6:09 PM, Phil Jeffrey wrote:
> That's quite brave - shipping your entire structure to people that could be
> actual competitors. But it was fun to play
That's quite brave - shipping your entire structure to people that could
be actual competitors. But it was fun to play at 1.4 Angstrom over lunch.
Practical points:
* not everyone loves 12Mb of attachments in one email in their inbox, so
if you do this again please put the files on a webserve
Dear Tom,
I think that only way for you is to make this structure yourself because it
is only way to learn something (at first you must ask in your lab).
Anyway, as student I can make some brief suggestions and guides for your
refinement
1) Find as much info about your protein as possible, especial
Dear Tom,
Q1: Are you really supposed to posting this information here?
Q2: Is there really NOT anyone you can ask in your own department to help you
with this?
Some initial hints/ideas/suggestions though - although I actually assume this
is meant to be a learning exercise for you …?
1) Have y
Dear Tom,
As far as I know you are the first person who sent his/her data that are
supposed to be _private_ to 1000+ CCP4BB subscribers.
The person who suggested you send this type of message to CCP4BB board played a
very cruel practical joke on you.
To CCP4BB support staff: Is it possible to
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