definition the 38% completeness figure refers to, and what the
anisotropic diffraction limits are.
Yours,
Rasmus Fogh
On 28/02/2024 17:58, Paul Adams wrote:
By setting wxc (weight of the X-ray term) to 0.1 there is good chance
that the refinement is dominated by the geometry term and the
Dear Marcin,
It turns out that the wheels of PDB deposition have turned very slowly
since I left the CCPN project. The agreement between the PDB,
BioMagResBank and CCPN was as I have described, but I gather that it has
since turned out that the PDB cannot accept NMR submissions as
originally
Dear All,
A side comment:
The two parallel sets of chain, residue, and atom names are actually
necessary for NMR structures - it is not just to keep the depositors
happy. The reason is that PDB atom names reflect absolute
stereochemistry. In NMR the absolute stereochemistry is not always
kno
Dear All,
This is way over my head, but did Jaynes not say something about getting
different results depending whether you assume both outcomes are
possible? I think his example was that if you observe the sun rise for
100 days in a row, the probability that it will rise on day 101 is no
grea
Dear Dale,
It is more complex than just 'flexibility', but then it is always more
complicated. Here are the main possibilities for undetermined regions:
-1- fast, free movement - signals are easy to see, have 'random-coil'
chemical shifts, often overlap, and there are no NOEs
-2- intermedia
Hi,
It has been a bit since I was in NMR, but I would propose CYRANGE
(http://www.bpc.uni-frankfurt.de/cyrange.html), based on the
recommendation of the PDB NMR Validation Task Force
(https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3884077/).
You can do both superposition and per-residue RMSD a
Hi Swati,
I am very far from expert, but if you have anisotropic diffraction have
you thought of bringing in Staraniso - public server at
https://staraniso.globalphasing.org? That should help keeping
reflections with higher I/sigma and rejecting those with mostly noise.
Yours,
Rasmus
On 23/
Dear All,
The link http://biosync.rcsb.org/index.jsp looked very interesting, but
a cursory look found the following line in a beamline description:
"Next proposal submission period Mid 2013"
Not 100% up to date, then.
Yours,
Rasmus
On 25/06/2020 09:36, Andrew Leslie wrote:
Dear Morpholino
;.
So, who knows how you are supposed to interpret that word in a BB
message in 2020??
;-)
Rasmus Fogh
On 11/03/2020 16:53, Eleanor Dodson wrote:
Am I missing something? He? She? It? Are they now interchangeable?
On Wed, 11 Mar 2020 at 16:15, Tim Gruene <mailto:tim.gru...@univie.ac.at>
n, but the scope for asking "more junior women" to teach these
particular workshops - or in general for broadening the base of tutors -
is limited by the fact that the pool of people with the qualifications
and experience to teach such courses at a high level is truly tiny.
Yours,
Ra
Hi,
It depends what you need to use it for.
NH chemical shifts correlate with secondary structure and backbone
torsion angles, up to a point, but the precise values are quite
sensitive to small structural changes, particularly for NH protons.
There are decent prediction programs, but a couple
A Newspeak, basically.
Happy new year,
Rasmus Fogh
On 26/12/2019 18:46, Bernhard Rupp wrote:
Hi Fellows - here some light Holiday entertainment (and puzzle) for you:
Remember my thanksgiving posting below? Meant as a hoax or satire, it follows
the
classical pattern of throwing postmodern Criti
Dear Kay,
Plus there is one Python-3-only feature that is a really big help for
any large and complex project:
Type annotations lets you specify is a simple way the type of function
parameters, both for documentation and so that your IDE can flag cases
where you misuse the parameters.
But of
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