(Have someone) look
> critical at the assigned space group and assess whether another choice
> might also be possible.
>
>
>
> Good luck!
>
> Herman
>
>
>
> *Von:* CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] *Im Auftrag von
> *Pooja Kesari
> *Ges
You could try the diffraction anisotropy server:
http://services.mbi.ucla.edu/anisoscale/.
Sometimes it helps maps become more interpretable.
Ben
On 26 Jan 2017, at 14:11, Pooja Kesari wrote:
We have a 2.6 A structure showing four chains in an asymmetric unit.
Kesari
Gesendet: Donnerstag, 26. Januar 2017 15:12
An: CCP4BB@JISCMAIL.AC.UK
Betreff: Re: [ccp4bb] Bad density for chains
We have a 2.6 A structure showing four chains in an asymmetric unit. Our
protein is 360 residues around 40 kDa . Mattews shows four chain in an
assymetric unit (solvent 49
Well - first
Solvent content..
1) there could be 4 molecules, or 3, or 2.. Solvent content varies a lot as
you know. Is there reasonable density for parts of all the chains?
2) Does the MR search clearly show 4 molecules? ie improvement in scores
with extra molecules?
3) Have you checked for
Hi,
assuming you've exhausted modeling choices and applied proper refinement
strategies, after all Rree=32% is not unheard of at 2.6A resolution (which
actually may be even worse than 2.6A if data set is not 100% complete).
Have a look at R-factors of models in PDB with data resolution around
We have a 2.6 A structure showing four chains in an asymmetric unit. Our
protein is 360 residues around 40 kDa . Mattews shows four chain in an
assymetric unit (solvent 49% mattews coeff 2.44). The template has about
60% homologous with our protein. The molecular replacement against this
template
This is a bit too vague to help much.
How did you solve the structure?
Eleanor
On 26 January 2017 at 03:50, Pooja Kesari wrote:
> Dear All,
> Thank you all for reply.
>
> We have checked the data for twinning.
> Our protein is 360 residues around 40 kDa protein.
> We have
Dear All,
Thank you all for reply.
We have checked the data for twinning.
Our protein is 360 residues around 40 kDa protein.
We have tried TLS refinement.
chain A and B don't superimpose well with chain C and D. (A and B chains
also share slight difference )
Since we don't have proper density for
@JISCMAIL.AC.UK
Subject: [ccp4bb] Bad density for chains
Dear All,
I have a 2.6 A resolution structure having four chains in an asymmetric unit.
The chain A and B have density for almost all residues however we don't have
proper residue density in chain C and D.What can be tried to build chain C
Hi Pooja,
Are you positive you have the correct space group and there are no other issues
like twinning, etc?
If sure, did you define NCS groups in refinement? TLS refinement? Try different
refinement programs?
How big is the molecule? Was it solved by MR or experimental phasing?
You can try
Dear All,
I have a 2.6 A resolution structure having four chains in an asymmetric
unit.
The chain A and B have density for almost all residues however we don't
have proper residue density in chain C and D.What can be tried to build
chain C and D ?
Many Thanks
Pooja
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