9SDW
tRNA (guanine-7-)-methyltransferase (trmD) from Staphylococcus aureus in complex with SAM-competitive compound
This is a non-PDB format compatible entry.
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | DIAMOND BEAMLINE I03 |
| Synchrotron site | Diamond |
| Beamline | I03 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2024-11-15 |
| Detector | DECTRIS EIGER2 XE 16M |
| Wavelength(s) | 0.9763 |
| Spacegroup name | P 43 3 2 |
| Unit cell lengths | 126.875, 126.875, 126.875 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 44.860 - 2.600 |
| R-factor | 0.2303 |
| Rwork | 0.228 |
| R-free | 0.29130 |
| Structure solution method | MOLECULAR REPLACEMENT |
| RMSD bond length | 0.007 |
| RMSD bond angle | 1.000 |
| Data reduction software | XDS |
| Data scaling software | Aimless |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.21.2_5419) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 56.740 | 2.740 |
| High resolution limit [Å] | 2.600 | 2.600 |
| Rmerge | 0.099 | 0.973 |
| Rmeas | 0.099 | 0.979 |
| Rpim | 0.106 | |
| Number of reflections | 11305 | 1340 |
| <I/σ(I)> | 44.7 | |
| Completeness [%] | 100.0 | |
| Redundancy | 79.6 | |
| CC(1/2) | 1.000 | 0.971 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, HANGING DROP | 7.4 | 294 | 8mg/mL protein in 1.4M Na Malonate pH 7.4, 0.1M Bis-Tris Propane |
