1R3F
Crystal Structure of tRNA Pseudouridine Synthase TruB and Its RNA Complex: RNA-protein Recognition Through a Combination of Rigid Docking and Induced Fit
Experimental procedure
| Experimental method | MAD |
| Source type | SYNCHROTRON |
| Source details | ALS BEAMLINE 5.0.2 |
| Synchrotron site | ALS |
| Beamline | 5.0.2 |
| Temperature [K] | 298 |
| Detector technology | CCD |
| Collection date | 2001-06-10 |
| Detector | ADSC QUANTUM 4 |
| Wavelength(s) | 0.97926, 0.97942, 0.9610 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 48.030, 71.010, 48.670 |
| Unit cell angles | 90.00, 117.87, 90.00 |
Refinement procedure
| Resolution | 40.000 * - 1.850 |
| R-factor | 0.228 |
| Rwork | 0.228 |
| R-free | 0.25700 |
| Structure solution method | MAD |
| RMSD bond length | 0.006 * |
| RMSD bond angle | 0.006 |
| Data reduction software | DENZO |
| Data scaling software | SCALEPACK |
| Phasing software | CNS |
| Refinement software | CNS |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 40.000 | 1.960 |
| High resolution limit [Å] | 1.850 | 1.850 |
| Rmerge | 0.069 | 0.470 |
| Total number of observations | 426647 * | |
| Number of reflections | 24806 | |
| <I/σ(I)> | 23.7 | 4.9 |
| Completeness [%] | 100.0 | 100 |
| Redundancy | 9.97 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | Vapor diffusion * | 7.5 * | PEG 4K, magnesium sulfate, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | drop | protein | 3 (mg/ml) | |
| 2 | 1 | drop | Tris | 10 (mM) | pH7.5 |
| 3 | 1 | drop | EDTA | 2 (mM) | |
| 4 | 1 | drop | dithiothreitol | 2 (mM) | |
| 5 | 1 | reservoir | PEG4000 | 8-10 (%(w/v)) | |
| 6 | 1 | reservoir | magnesium sulfate | 0.2 (mM) | |
| 7 | 1 | reservoir | sodium cacodylate | 100 (mM) | pH6.5 |
