Hi,
Did the warning persist beyond the first few iterations?
As the message says:
> You probably need not worry if the accuracy improves during the next
few iterations.
> good 2D and 3D classes
How good? Did your 3D classes show secondary structures?
Is your target hard to align?
i.e. is it a membrane protein? what is the molecular weight?
Best regards,
Takanori Nakane
On 2023/05/30 10:11, Poland, Brad wrote:
> I have selected what I think are good 2D and 3D classes, but 3D Auto
> Refine is giving me these warnings
>
> Auto-refine: Estimated accuracy angles= 30.1 degrees; offsets= 4.5753
> Angstroms
>
> Auto-refine: WARNING: Iter = 2 The angular accuracy is worse than 10
> degrees, so basically you cannot align your particles (yet)!
>
> Auto-refine: WARNING: You probably need not worry if the accuracy
> improves during the next few iterations.
>
> Auto-refine: WARNING: However, if the problem persists it may lead to
> spurious FSC curves, so be wary of inflated resolution estimates...
>
> Auto-refine: WARNING: Sometimes it is better to tune resolution yourself
> by adjusting T in a 3D-classification with a single class.
>
> Any suggestions on how to fix this?
>
> Brad
>
> Brad Poland, PhD
>
> Research Scientist
>
> Structural Biology
>
> Corteva Agriscience
>
> 7300 NW 62^nd Ave
>
> Johnston, IA 50131
>
>
> ------------------------------------------------------------------------
>
> To unsubscribe from the CCPEM list, click the following link:
> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCPEM&A=1
> <https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCPEM&A=1>
>
########################################################################
To unsubscribe from the CCPEM list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCPEM&A=1
This message was issued to members of www.jiscmail.ac.uk/CCPEM, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
|