2ZM5
Crystal structure of tRNA modification enzyme MiaA in the complex with tRNA(Phe)
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 | 2006-11-14 |
| Detector | ADSC QUANTUM 315 |
| Wavelength(s) | 0.9791 |
| Spacegroup name | P 21 21 21 |
| Unit cell lengths | 88.200, 89.400, 150.800 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 20.000 - 2.550 |
| R-factor | 0.24 |
| Rwork | 0.240 |
| R-free | 0.27000 |
| Structure solution method | SAD |
| RMSD bond length | 0.008 |
| RMSD bond angle | 1.720 |
| Data reduction software | HKL-2000 |
| Data scaling software | HKL-2000 |
| Phasing software | SHELXD |
| Refinement software | CNS (1.1) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | 2.640 |
| High resolution limit [Å] | 2.550 | 2.550 |
| Rmerge | 0.076 | 0.260 |
| Number of reflections | 39165 | |
| <I/σ(I)> | 21.9 | 3.85 |
| Completeness [%] | 99.0 | 93.6 |
| Redundancy | 7.1 | 6.2 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 5.8 | 291 | 0.09M MES, 24% PEG 3350, 0.18mM Ca(OAc)2, 0.01mM tri-Sodium Citrate dihydrate pH 5.6, 2% iso-Propanol, 2% PEG 4000, pH 5.8, VAPOR DIFFUSION, HANGING DROP, temperature 291K |
Crystallization Reagents
| ID | crystal ID | solution ID | reagent name | concentration | details |
| 1 | 1 | 1 | MES | ||
| 10 | 1 | 2 | Ca(OAc)2 | ||
| 11 | 1 | 2 | tri-Sodium Citrate dihydrate | ||
| 12 | 1 | 2 | PEG 4000 | ||
| 13 | 1 | 2 | H2O | ||
| 2 | 1 | 1 | PEG 3350 | ||
| 3 | 1 | 1 | Ca(OAc)2 | ||
| 4 | 1 | 1 | tri-Sodium Citrate dihydrate | ||
| 5 | 1 | 1 | iso-Propanol | ||
| 6 | 1 | 1 | PEG 4000 | ||
| 7 | 1 | 1 | H2O | ||
| 8 | 1 | 2 | MES | ||
| 9 | 1 | 2 | PEG 3350 |
