6Z2O
Crystal structure of wild type OgpA from Akkermansia muciniphila in P 21 21 21
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I24 |
Synchrotron site | Diamond |
Beamline | I24 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-05-16 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 1.170200 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 65.379, 70.170, 94.668 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 29.632 - 1.649 |
R-factor | 0.1915 |
Rwork | 0.190 |
R-free | 0.20930 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6z2d |
Data reduction software | XDS |
Data scaling software | XDS |
Phasing software | PHASER |
Refinement software | PHENIX (1.14_3260) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 29.632 | 1.708 |
High resolution limit [Å] | 1.649 | 1.649 |
Rmerge | 0.088 | 0.575 |
Rmeas | 0.091 | 0.605 |
Number of reflections | 52999 | 5089 |
<I/σ(I)> | 16.95 | 3.29 |
Completeness [%] | 99.7 | 97.03 |
Redundancy | 12.6 | 10.5 |
CC(1/2) | 0.998 | 0.183 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 291 | 100mM sodium imidazole/MES monohydrate pH 6.5, 100mM carboxylic acids mixture (sodium formate, ammonium acetate, sodium citrate tribasic dihydrate, sodium potassium tartrate tetrahydrate and sodium oxamate) and 50% (w/v) of precipitant mix based on 25% (w/v) MPD, 25% (w/v) PEG 1000 and 25% (w/v) PEG 3350 (Morpheus protein crystallization screen). |