8UD7
Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution
This is a non-PDB format compatible entry.
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 24-ID-C |
Synchrotron site | APS |
Beamline | 24-ID-C |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2022-04-20 |
Detector | DECTRIS EIGER2 X 16M |
Wavelength(s) | 0.97918 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 210.030, 450.060, 623.800 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 182.490 - 2.550 |
R-factor | 0.2073 |
Rwork | 0.205 |
R-free | 0.24230 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6xhv |
RMSD bond length | 0.004 |
RMSD bond angle | 0.840 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX (1.8.2) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 182.490 | 182.490 | 2.620 |
High resolution limit [Å] | 2.550 | 11.400 | 2.550 |
Rmerge | 0.171 | 0.043 | 2.436 |
Rmeas | 0.183 | 0.046 | 2.601 |
Total number of observations | 14829135 | ||
Number of reflections | 1891637 | 22074 | 139447 |
<I/σ(I)> | 10.95 | 41.03 | 0.98 |
Completeness [%] | 100.0 | 98.9 | 100 |
Redundancy | 7.839 | 7.839 | 8.084 |
CC(1/2) | 0.996 | 0.997 | 0.293 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION | 7.6 | 292 | 0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME |