8AXT
Sialidases and Fucosidases of Akkermansia muciniphila are key for rapid growth on colonic mucin and nutrient sharing amongst mucin-associated human gut microbiota
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) |
Synchrotron site | PETRA III, EMBL c/o DESY |
Beamline | P14 (MX2) |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-09-25 |
Detector | DECTRIS EIGER2 S 16M |
Wavelength(s) | 0.9762 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 72.960, 56.790, 146.720 |
Unit cell angles | 90.00, 94.55, 90.00 |
Refinement procedure
Resolution | 72.730 - 1.590 |
R-factor | 0.17 |
Rwork | 0.168 |
R-free | 0.20200 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | alpha fold model |
RMSD bond length | 0.009 |
RMSD bond angle | 1.051 |
Data reduction software | xia2 |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.19.2_4158) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 146.258 | 1.630 |
High resolution limit [Å] | 1.590 | 1.590 |
Rmerge | 0.300 | 1.000 |
Rmeas | 0.320 | 1.000 |
Rpim | 1.000 | |
Number of reflections | 160846 | 11798 |
<I/σ(I)> | 6.7 | |
Completeness [%] | 99.8 | 99.8 |
Redundancy | 6.7 | 6.6 |
CC(1/2) | 0.990 | 0.320 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION | 5.5 | 293 | 25% PEG 3350, 0.1 M Bis tris, 0.2 MgCl2 |