6AEM
Crystal structure of the PKD1 domain of Vibrio anguillarum Epp
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL19U1 |
Synchrotron site | SSRF |
Beamline | BL19U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2017-03-11 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.978530 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 71.096, 46.069, 41.616 |
Unit cell angles | 90.00, 97.39, 90.00 |
Refinement procedure
Resolution | 35.253 - 1.272 |
R-factor | 0.1526 |
Rwork | 0.151 |
R-free | 0.18620 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4l9d |
RMSD bond length | 0.010 |
RMSD bond angle | 1.147 |
Data reduction software | XDS (Nov 11, 2017, built on 20171111) |
Data scaling software | Aimless ((version 0.5.29), CCP4 7.0.026) |
Phasing software | PHASER (2.7.17) |
Refinement software | PHENIX ((1.10.1_2155)) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 38.566 | 1.277 |
High resolution limit [Å] | 1.272 | 1.272 |
Rmerge | 0.065 | 0.924 |
Rmeas | 0.070 | 1.001 |
Rpim | 0.027 | 0.381 |
Number of reflections | 33927 | 308 |
<I/σ(I)> | 19.3 | 2.1 |
Completeness [%] | 96.7 | 85.3 |
Redundancy | 6.7 | 6.8 |
CC(1/2) | 0.999 | 0.771 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 293 | 21mg/ml protein in 10 mM HEPES (pH 7.5), 150 mM NaCl, 1 mM DTT was mixed with 0.1 M sodium cacodylate pH 6.5, 18% PEG8000 (w/v), 0.2 M zinc acetate in 1:1 volume ratio |