7KFF
Crystal structure of TrmD tRNA (guanine-N1)-methyltransferase from Corynebacterium diphtheriae in complex with SAH
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | APS BEAMLINE 19-ID |
| Synchrotron site | APS |
| Beamline | 19-ID |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2019-06-16 |
| Detector | DECTRIS PILATUS3 X 6M |
| Wavelength(s) | 0.9792 |
| Spacegroup name | P 31 2 1 |
| Unit cell lengths | 83.619, 83.619, 79.418 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 28.790 - 1.350 |
| R-factor | 0.1315 |
| Rwork | 0.131 |
| R-free | 0.15380 |
| Structure solution method | SAD |
| RMSD bond length | 0.007 |
| RMSD bond angle | 1.058 |
| Data reduction software | HKL-3000 |
| Data scaling software | HKL-3000 |
| Phasing software | HKL-3000 |
| Refinement software | PHENIX (dev_3409) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 30.000 | 1.370 |
| High resolution limit [Å] | 1.350 | 1.350 |
| Rmerge | 0.109 | 1.417 |
| Number of reflections | 70894 | 3365 |
| <I/σ(I)> | 27 | 1.71 |
| Completeness [%] | 99.5 | 95.2 |
| Redundancy | 12.2 | 6.1 |
| CC(1/2) | 1.000 | 0.577 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 289 | 0.17 M sodium acetate, 0.085 M Tris/HCl pH 8.5, 25.5% PEG 4000, 15% glycerol |
