*** For details on how to be removed from this list visit the ***
*** CCP4 home page http://www.ccp4.ac.uk ***
Juergen Bosch wrote:
I agree with Bart in the "reviewing part" but during refinement I use
all available data, depending on NCS, completeness and redundancy it
might also be lower than 1 sigma but not lower than 0.5. I would expect
that XDS will have a better I/sigI versus e.g. HKL2000 - but maybe
somebody much wiser might comment on this.
Once the refinement is done Table 1 is adjusted to meet the expectations
of reviewers I/sigI and Rsym, but the stuff that goes to the PDB will
contain all data :-)
Maybe I don't understand you correctly but the role of Table 1 is to
describe the experimental data that was used to derive the model. You
can't use resolution X for refinement and then report statistics up to
resolution Y because it looks nicer. Reviewers should definately have a
problem with that procedure. If you think the model is better by
following your procedure, and I'm not saying it's not, then you should
be able to state it in the paper and refute any comments reviewers may have.
Bart
Jürgen
Bart Hazes wrote:
*** For details on how to be removed from this list visit the ***
*** CCP4 home page http://www.ccp4.ac.uk ***
Taiana Oliveira wrote:
Hi everybody,
I would like for you to clarify me abou the I/sigma value. I found
articles saying that resolutions with value below 2.0 must be
discarded but that for maxium likelihood methods this rule may be
ignored. How to proceed? What values may be considered as limits in
this case?
In my experience a value of 2.0 is conservative and seems to be used
mostly to avoid arguments with reviewers. There is not a hard cutoff
value but I think you're likely ok to 1.5. As the I/SigI goes down the
information content gets lower but maximum likelihood shoult account
for that. Check Rfree in the highest resolution shell to make sure
there is at least some correlation between model and observations.
Bart
==============================================================================
Bart Hazes (Assistant Professor)
Dept. of Medical Microbiology & Immunology
University of Alberta
1-15 Medical Sciences Building
Edmonton, Alberta
Canada, T6G 2H7
phone: 1-780-492-0042
fax: 1-780-492-7521
==============================================================================
--
==============================================================================
Bart Hazes (Assistant Professor)
Dept. of Medical Microbiology & Immunology
University of Alberta
1-15 Medical Sciences Building
Edmonton, Alberta
Canada, T6G 2H7
phone: 1-780-492-0042
fax: 1-780-492-7521
==============================================================================
