5DOY
Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolution
This is a non-PDB format compatible entry.
Replaces: 4Z3QExperimental 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 | 2014-10-11 |
Detector | DECTRIS PILATUS 6M-F |
Wavelength(s) | 0.97900 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 208.390, 444.580, 619.200 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 361.136 - 2.600 |
R-factor | 0.2358 |
Rwork | 0.233 |
R-free | 0.28280 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 4y4p |
RMSD bond length | 0.005 |
RMSD bond angle | 0.957 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHASER |
Refinement software | PHENIX |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 361.136 | 361.136 | 2.670 |
High resolution limit [Å] | 2.600 | 11.630 | 2.600 |
Rmerge | 0.186 | 0.044 | 1.503 |
Rmeas | 0.205 | 0.048 | 1.666 |
Total number of observations | 9880724 | ||
Number of reflections | 1725274 | 19594 | 127428 |
<I/σ(I)> | 7.32 | 22.74 | 1.04 |
Completeness [%] | 99.3 | 95.5 | 99.5 |
Redundancy | 5.727 |
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 |