2ZXU
Crystal structure of tRNA modification enzyme MiaA in the complex with tRNA(Phe) and DMASPP
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | PHOTON FACTORY BEAMLINE BL-17A |
| Synchrotron site | Photon Factory |
| Beamline | BL-17A |
| Temperature [K] | 100 |
| Detector technology | CCD |
| Collection date | 2007-11-03 |
| Detector | ADSC QUANTUM 270 |
| Wavelength(s) | 1.0 |
| Spacegroup name | P 21 21 21 |
| Unit cell lengths | 88.300, 90.000, 150.500 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 20.000 - 2.750 |
| Rwork | 0.237 |
| R-free | 0.28100 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 2zm5 |
| RMSD bond length | 0.007 |
| RMSD bond angle | 1.330 |
| Data reduction software | HKL-2000 |
| Data scaling software | HKL-2000 |
| Phasing software | LAFIRE |
| Refinement software | CNS (1.1) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | 2.850 |
| High resolution limit [Å] | 2.750 | 2.750 |
| Rmerge | 0.050 | 0.368 |
| Number of reflections | 31721 | |
| <I/σ(I)> | 16.8 | 6 |
| Completeness [%] | 99.7 | 99.8 |
| Redundancy | 5 | 5.1 |
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, 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 |
