Also forget to observe side chains at 4A! At this resolution is crucial
to critically assess the position of each amino acid in your model,
taking into account factors such as hinges in your structure,
hydrophobic and hydrophilic regions, and the types of contacts between
secondary structure el
Hello,
At low resolutions, model bias becomes a significant issue, capable of
yielding inaccurate MR solutions even with favorable figures of merit.
In my experience, it is always necessary to validate MR solutions at low
resolution. One effective approach involves systematically omitting
sma
Dear all,
The NIH Transformative High Resolution CryoEM Program service centers will be
hosting a special roundtable discussion in December as part of our CryoEM
Current Practices webinar series.
Time: Thursday, December 14, 2023 at 9 AM pacific / 12 PM eastern time
Topic: Do you see what I see?
Q0. Echoing Randy - how accurate is your starting model - Xray structure at
resolution 1.5A or high quality EM or NMR??
Q1. Are the solutions the same? There is a CCP4 tool in ccp4i2 - Match my
model which will check this taking into account symmetry and origin shifts.
On Tue, 21 Nov 2023 at 14
Hi,
Whether or not you’ll get anything useful from a 4.3 A MR solution depends on
your question — maybe you’re interested in something large-scale like complex
formation or domain movement, in which case it could tell you something.
In any case, it’s important to have a good starting model. Unl
Hi,
As the others have already mentioned, it is hard to get any decent MR solution
at this resolution. The best thing to do would be to set up more crystal
plates and harvest crystals growing at different conditions. You also have not
mentioned where you diffracted your crystals. If you did it
On 21/11/2023 12:02, Yahui Liu wrote:
Dear all,
I got a protein crystal dataset of 4.3 A and would like to some the
structure with MR.
Now I am suffering with the refinement.
Just for the record, then intention of refinement is not to make you suffer.
Paul.
##
Sorry - the simplest answer - is get higher resolution data!
But there are some improvements possible.
How clear is your MR solution.
What is the similarity between model and your sequence?
Etc.
On Tue, 21 Nov 2023 at 12:03, Yahui Liu wrote:
> Dear all,
> I got a protein crystal dataset of 4.3
Dear all,
I got a protein crystal dataset of 4.3 A and would like to some the
structure with MR.
Now I am suffering with the refinement. I used both Refmac and Phenix.
Someone could give me a hand or any suggestions?
All the best
#
The early bird deadline for in-person registration for the CCP4 Study Weekend
2024 has been extended until Friday 24th November.
Regards
Karen McIntyre
CCP4 Project Administrator
CCP4 Equality, Diversity and Inclusion Champion
Member of SCD ED&I Working Group
Science and Technology Facilities
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