6KTC
Crystal structure of YBX1 CSD with m5C RNA
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL19U1 |
Synchrotron site | SSRF |
Beamline | BL19U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2018-06-25 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.9789 |
Spacegroup name | P 62 |
Unit cell lengths | 66.706, 66.706, 34.224 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 33.353 - 2.008 |
R-factor | 0.2388 |
Rwork | 0.237 |
R-free | 0.27400 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 3i2z |
RMSD bond length | 0.003 |
RMSD bond angle | 0.647 |
Data reduction software | HKL-3000 |
Data scaling software | HKL-3000 |
Phasing software | PHENIX |
Refinement software | PHENIX ((phenix.refine: 1.9_1692)) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 50.000 | 2.030 |
High resolution limit [Å] | 2.000 | 2.000 |
Number of reflections | 5075 | 265 |
<I/σ(I)> | 17.4 | 4.7 |
Completeness [%] | 97.8 | 86.9 |
Redundancy | 13.2 | 8.9 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 297 | 2.5 M Ammonium sulfate, 0.1 M Tris pH 8.5. |