6XMA
Crystal structure of iron-bound LSD4 from Sphingobium sp. strain SYK-6
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU MICROMAX-007 HF |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2019-06-10 |
Detector | RIGAKU SATURN 944+ |
Wavelength(s) | 1.5418 |
Spacegroup name | I 2 2 2 |
Unit cell lengths | 86.030, 112.527, 115.384 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 29.788 - 1.450 |
R-factor | 0.1503 |
Rwork | 0.149 |
R-free | 0.17070 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6ojr |
Data reduction software | DENZO |
Data scaling software | HKL-2000 |
Phasing software | MOLREP |
Refinement software | PHENIX (1.14-3260) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 1.480 |
High resolution limit [Å] | 1.450 | 3.940 | 1.450 |
Rmerge | 0.110 | 0.072 | 0.558 |
Rmeas | 0.113 | 0.073 | 0.633 |
Rpim | 0.024 | 0.012 | 0.291 |
Number of reflections | 190316 | 5203 | 4752 |
<I/σ(I)> | 12.7 | ||
Completeness [%] | 99.9 | 99.8 | 97.3 |
Redundancy | 16.1 | 33.9 | 4.2 |
CC(1/2) | 0.999 | 0.829 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 8 | 293 | 0.4 M magnesium acetate and 28% PEG3350 |