6ND5
Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A 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 | 2018-07-22 |
Detector | DECTRIS PILATUS 6M-F |
Wavelength(s) | 0.9795 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 208.990, 448.290, 618.520 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 127.281 - 2.600 |
R-factor | 0.2317 |
Rwork | 0.229 |
R-free | 0.27610 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4y4p |
RMSD bond length | 0.003 |
RMSD bond angle | 0.663 |
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] | 127.281 | 127.281 | 2.670 |
High resolution limit [Å] | 2.600 | 11.630 | 2.600 |
Rmerge | 0.200 | 0.036 | 1.670 |
Rmeas | 0.228 | 0.041 | 1.914 |
Total number of observations | 7484694 | ||
Number of reflections | 1733144 | 19611 | 128082 |
<I/σ(I)> | 6.44 | 20.57 | 0.84 |
Completeness [%] | 98.7 | 94.7 | 99.1 |
Redundancy | 4.319 | 4.349 | 3.941 |
CC(1/2) | 0.986 | 0.998 | 0.166 |
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 |