1J1U
Crystal structure of archaeal tyrosyl-tRNA synthetase complexed with tRNA(Tyr) and L-tyrosine
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SPRING-8 BEAMLINE BL41XU |
| Synchrotron site | SPring-8 |
| Beamline | BL41XU |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2002-05-23 |
| Detector | MARRESEARCH |
| Wavelength(s) | 0.9132 |
| Spacegroup name | P 31 2 1 |
| Unit cell lengths | 86.805, 86.805, 156.075 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 50.000 * - 1.950 |
| R-factor | 0.188 |
| Rwork | 0.188 |
| R-free | 0.23900 |
| Structure solution method | SAD |
| RMSD bond length | 0.026 |
| RMSD bond angle | 2.200 |
| Data reduction software | DENZO |
| Data scaling software | SCALEPACK |
| Phasing software | MLPHARE |
| Refinement software | CNS (1.0) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | 1.980 |
| High resolution limit [Å] | 1.950 | 1.950 |
| Rmerge | 0.071 | 0.282 |
| Total number of observations | 419557 * | |
| Number of reflections | 49557 | |
| <I/σ(I)> | 30.9 | 2.2 |
| Completeness [%] | 98.7 | 93.1 |
| Redundancy | 8.5 | 2.9 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7.9 * | 30 * | 1,6-hexanediol, ammonium chloride, magnesium chloride, zinc acetate, sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 303K |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7.9 * | 30 * | 1,6-hexanediol, ammonium chloride, magnesium chloride, zinc acetate, sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 303K |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | 1,6-hexanediol | ||
| 2 | 1 | 1 | ammonium chloride | ||
| 3 | 1 | 1 | magnesium chloride | ||
| 4 | 1 | 1 | zinc acetate | ||
| 5 | 1 | 1 | sodium acetate | ||
| 6 | 1 | 2 | ammonium chloride | ||
| 7 | 1 | 2 | magnesium chloride | ||
| 8 | 1 | 2 | zinc acetate | ||
| 9 | 1 | 2 | sodium acetate |
Crystallization Reagents in Literatures
| ID | crystal ID | solution | reagent name | concentration (unit) | details |
| 1 | 1 | drop | protein-tRNA | 6-8 (mg/ml) | |
| 10 | 1 | reservoir | zinc acetate | 1 (mM) | |
| 2 | 1 | drop | tyrosine | 2 (mM) | |
| 3 | 1 | drop | Tris-HCl | 20 (mM) | pH7.9 |
| 4 | 1 | drop | 20 (mM) | ||
| 5 | 1 | drop | 2-mercaptoethanol | 10 (mM) | |
| 6 | 1 | reservoir | 1,6-hexanediol | 30 (%(v/v)) | |
| 7 | 1 | reservoir | sodium acetate | 50 (mM) | pH4.0 |
| 8 | 1 | reservoir | 200 (mM) | ||
| 9 | 1 | reservoir | 10 (mM) |
