8FC4
Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.45A 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 | 2022-04-26 |
Detector | DECTRIS EIGER2 X 16M |
Wavelength(s) | 0.97918 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 209.460, 449.560, 619.150 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 103.720 - 2.450 |
R-factor | 0.2207 |
Rwork | 0.218 |
R-free | 0.26350 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6xhx |
RMSD bond length | 0.004 |
RMSD bond angle | 0.892 |
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] | 103.720 | 103.720 | 2.510 |
High resolution limit [Å] | 2.450 | 10.960 | 2.450 |
Rmerge | 0.148 | 0.049 | 1.569 |
Rmeas | 0.169 | 0.055 | 1.803 |
Total number of observations | 8767329 | ||
Number of reflections | 2082801 | 23838 | 151966 |
<I/σ(I)> | 7.51 | 22.23 | 0.85 |
Completeness [%] | 98.8 | 96.1 | 97.8 |
Redundancy | 4.209 | 4.511 | 4.161 |
CC(1/2) | 0.991 | 0.995 | 0.134 |
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 |