Dear Jim,
3.45 Angstrom is a perfectly normal resolution for a structure
mediated by 'wobbly' detergent / lipid contacts.
In this type of crystal the quality of the maps is the best indicator
of intrinsic protein order.
Send some density (in stereoview) to the journal as supplementary dat
presenting functional data that support the structural model goes a
long way in these cases, obviously...
bob
--
Robert Keenan
Assistant Professor
Dept. of Biochemistry & Molecular Biology
GCIS W238
University of Chicago
929 East 57th St
If the reviewers are complaining, then one may have to do a better job
in conveying the message. It often helps to add some preemptive
phrases to the text, including references to well respected studies at
similar resolutions where valid conclusions could be drawn. The other
possibility is,
On Apr 11, 2008, at 3:04 AM, Jim Naismith wrote:
However, does anyone know how to convince editors and non-
xtallographers that 3.45A is valid?
You have to introduce them to the resolution vs. biological interest
trade-off matrix, and how it ought to be diagonaliz(s)ed.
Bill
ject: [ccp4bb] Low resol structure
Dear All,
I have an interesting problem, we have a 3.45A
structure of
a membrane protein. We have just been told that the structure is
"too low
resolution to be considered as the uncertainty is too high". We use
the
structure to identify
This appears to be the unfortunate, but inevitable result of the membrane
protein structure retractions from 2007. Without a doubt, there needs to
be at least one crystallographer reviewing the structures for structure
papers, as any crystallographer would be comfortable with the claims that
J
board on behalf of Jim Naismith
Sent: Fri 4/11/2008 6:04 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Low resol structure
Dear All,
I have an interesting problem, we have a 3.45A structure of
a membrane protein. We have just been told that the structure is "too low
resolution
Dear Jim,
The funny part is that the same journals will publish NMR structures. In
terms of data/parameter ratio or in terms of comparing quality
(Battacharya, Tejero and Montelione, Proteins:structure function genetics
66:778-795), the good NMR structures are about 2.5A resolution and most
NMR
Dear Jim,
I guess you entered the ABC transporter zone.
You say you use the structure to show the movement of helices.
One important point is whether this structure is based on a
molecular replacement solution, or it was built from experimental
phases. There are numerous cases where adding some
The point _ought_ to be the general scientific argument, "does the
experimental evidence support the conclusions made?" The questions
that can be asked & answered will depend on the resolution among many
other things
EM blobs seem to be publishable :-)
Phil
On 11 Apr 2008, at 11:04, Jim
Dear All,
I have an interesting problem, we have a 3.45A structure of
a membrane protein. We have just been told that the structure is "too low
resolution to be considered as the uncertainty is too high". We use the
structure to identify helices which have moved.
Is there a blanke
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