Dear community
I ran PISA from CCP4i to analyze a protein-ssDNA complex with non-standard
modified nucleotides. It turns out that PISA identifies each nucleotide in
the DNA chain as a ligand (i.e. I have 7 DNA bases and PISA calls out 7
ligands). May I solicit your experience if there is a way to
Dear Sam
I can only suggest trying the old trick of editing the pdb file and giving all
the DNA bases the same residue number. As you are using the old gui you might
be able to do the same with pdbset or pdbcur, or maybe a graphics program.
Cheers, Jon Cooper
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Dear all,
I have just started with X-ray diffraction. I would appreciate any ideas as
to why after one cycle of phenix.refine , the Rfree value increased for the
ligand fitted model.
Thanks
Wajahat
To unsubscribe from th
Dear all,
I have just started with X-ray diffraction.
I would appreciate any ideas as to why after one cycle of phenix.refine , the
Rfree value increased for my ligand fitted model molecular replacement solution
model.
Thanks
Wajahat
#
Hi Wajahat,
first off, there is a dedicated mailing list for Phenix specific questions (
http://phenix-online.org/).
You need to run more than one refinement cycle before you try making sense
of R factors.
Pavel
On Wed, Jan 20, 2021 at 10:05 AM Wajahat ali khan
wrote:
> Dear all,
>
>
> I have
Well - there are several possible reasons for that .
The least pleasing is that you have built the ligand in the wrong place,
but leaving that aside.
When you add something to your model the coordinates are rather approximate
and the B factors are usually set to some quite arbitrary value, so it
t
Dear PI s, and senior scientists' involved in recruitment,
Why do so many (especially postdoc) positions these days indicate:
> Readiness for high workload
> able to work independently but also effectively and collaboratively with
> other lab member
> Candidates should have a documented public
Dear Markus,
thank you for opening this discussion.
I'd like to add that in some countries, like France, where I work, this
goes often along with with 12 months contracts.
Imagine moving continent, eventually with family (yes, PostDocs happen
to have a family) just for a 12 months contract, un
We looking for a new team player in the SIBYLS group at the
Lawrence Berkeley Lab.
https://lbl.referrals.selectminds.com/jobs/biochemist-postdoc-fellow-3498
Lawrence Berkeley National Lab’s (LBNL) Biosciences Division has an opening
for a Biochemist Postdoc Fellow to join the team.
In this exciti
Dear Gerlind, Markus, All:
Well, sometimes the (written) promise of a 2-year contract also ends up
boiling down systematically (for some PIs) to only a 6-month contract
after all.--And that after you've spent half a year or more and multiple
trips to the country concerned trying to get a work visa
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