Dear Yu,
in the CORRECT.LP,
The I/Sig is very low for the resolution higher than 4.17 . If i were
you i probably cut the resolution around 4 Å not 2.8 Å. Because of the
I/sig and CC.
This explain probably the bad electron density. Because, you have not
strong information for the resolution higher than 4 Å.
Hope to help
Nicolas
Le 30/08/13 10:59, Yu Longjiang a écrit :
Dear all,
I recently collected a dataset of a membrane protein. I first
processed the data with HKL2000 to 2.8A ( the diffraction limit) at
the beamline, and then treated the data again with XDS, although I am
not familiar with this program. the quality of this data seemed not
good compared with the other data we have collected before , and the
electron density was worse after molecular replacement and refinement.
the log file of HKL2000 is too large, so I just paste last statistics
as below, the CORRECT.LP is also attached.
Shell Lower Upper Average Average Norm. Linear Square
limit Angstrom I error stat. Chi**2 R-fac R-fac
50.00 7.59 526.8 6.8 4.4 2.442 0.047 0.048
7.59 6.03 54.4 2.5 2.4 1.727 0.112 0.104
6.03 5.27 26.6 3.5 3.5 1.289 0.197 0.183
5.27 4.79 27.4 4.9 4.9 1.201 0.231 0.228
4.79 4.44 28.2 6.6 6.6 1.083 0.265 0.282
4.44 4.18 28.2 8.0 8.0 0.939 0.304 0.357
4.18 3.97 28.1 9.3 9.3 0.835 0.343 0.454
3.97 3.80 28.6 10.4 10.4 0.802 0.366 0.501
3.80 3.65 29.9 11.1 11.1 0.815 0.374 0.529
3.65 3.53 30.0 11.7 11.6 0.824 0.384 0.550
3.53 3.42 30.2 12.1 12.0 0.812 0.386 0.557
3.42 3.32 29.8 12.2 12.2 0.817 0.389 0.565
3.32 3.23 29.3 12.3 12.3 0.797 0.387 0.558
3.23 3.15 28.4 12.3 12.3 0.802 0.387 0.559
3.15 3.08 27.5 12.2 12.2 0.777 0.383 0.556
3.08 3.02 26.7 12.0 12.0 0.762 0.383 0.551
3.02 2.96 25.6 11.8 11.7 0.773 0.387 0.562
2.96 2.90 25.1 11.7 11.6 0.734 0.379 0.543
2.90 2.85 24.0 11.5 11.5 0.731 0.384 0.548
2.85 2.80 23.7 11.5 11.5 0.754 0.383 0.551
All reflections 56.0 9.5 9.4 1.364 0.100 0.056
Any suggestion and comment about this dataset is greatly appreciated.
Thanks a lot!
YU
