7XOF
Crystal structure of Oryza sativa plastid glycyl-tRNA synthetase
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SPRING-8 BEAMLINE BL45XU |
Synchrotron site | SPring-8 |
Beamline | BL45XU |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2019-12-09 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 1.00000 |
Spacegroup name | P 1 21 1 |
Unit cell lengths | 74.130, 130.940, 123.390 |
Unit cell angles | 90.00, 101.88, 90.00 |
Refinement procedure
Resolution | 65.470 - 2.560 |
R-factor | 0.2119 |
Rwork | 0.210 |
R-free | 0.25040 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 5f5w |
Data reduction software | XDS |
Data scaling software | Aimless (0.7.4) |
Phasing software | PHASER |
Refinement software | PHENIX (1.19_4092) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 65.470 | 65.470 | 2.630 |
High resolution limit [Å] | 2.560 | 11.450 | 2.560 |
Rmerge | 0.066 | 0.027 | 0.467 |
Rmeas | 0.083 | 0.034 | 0.592 |
Rpim | 0.049 | 0.020 | 0.359 |
Total number of observations | 168193 | 1858 | 12681 |
Number of reflections | 68702 | 756 | 5162 |
<I/σ(I)> | 9.5 | 27.2 | 2.1 |
Completeness [%] | 93.0 | 88.1 | 94.8 |
Redundancy | 2.4 | 2.5 | 2.5 |
CC(1/2) | 0.997 | 0.998 | 0.786 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | EVAPORATION | 7.5 | 289 | PEG 3350 |