7F3J
Crystal structure of human YBX2 CSD in complex with m5C RNA in space group P1
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL18U1 |
Synchrotron site | SSRF |
Beamline | BL18U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-05-24 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.97915 |
Spacegroup name | P 1 |
Unit cell lengths | 42.616, 46.364, 57.704 |
Unit cell angles | 69.26, 85.60, 90.02 |
Refinement procedure
Resolution | 24.740 - 1.950 |
R-factor | 0.1903 |
Rwork | 0.188 |
R-free | 0.22890 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6a6j |
RMSD bond length | 0.007 |
RMSD bond angle | 1.102 |
Data reduction software | HKL-3000 |
Data scaling software | HKL-3000 |
Phasing software | PHENIX |
Refinement software | PHENIX (1.18.2_3874) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 1.980 |
High resolution limit [Å] | 1.950 | 1.950 |
Rmerge | 0.071 | 0.276 |
Number of reflections | 29797 | 1385 |
<I/σ(I)> | 14.2 | |
Completeness [%] | 97.1 | |
Redundancy | 2.8 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 290 | 30% (w/v) PEG 4000, 0.1 M Tris-HCl, pH 8.5, 0.2 M Lithium Sulfate |