8S38
Crystal structure of Medicago truncatula glutamate dehydrogenase 2 in complex with citrate and NAD
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) |
Synchrotron site | PETRA III, EMBL c/o DESY |
Beamline | P13 (MX1) |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-10-20 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.9763 |
Spacegroup name | I 21 21 21 |
Unit cell lengths | 95.368, 163.100, 219.023 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 59.640 - 1.890 |
R-factor | 0.1582 |
Rwork | 0.158 |
R-free | 0.18730 |
Structure solution method | MOLECULAR REPLACEMENT |
RMSD bond length | 0.011 |
RMSD bond angle | 1.029 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.18.1_3865) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 99.000 | 2.000 |
High resolution limit [Å] | 1.890 | 1.890 |
Rmerge | 0.062 | 0.899 |
Rmeas | 0.067 | 0.974 |
Number of reflections | 135999 | 21745 |
<I/σ(I)> | 18.29 | 2.03 |
Completeness [%] | 99.9 | 99.5 |
Redundancy | 6.74 | 6.73 |
CC(1/2) | 0.990 | 0.730 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 5 | 292 | 100 mM MgCl2 , 100 mM Na-citrate pH 5.0, 15% PEG 4000 |