8EV6

Crystal structure of the Thermus thermophilus 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs

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	2020-06-17
Detector	DECTRIS EIGER2 X 16M
Wavelength(s)	0.97918
Spacegroup name	P 21 21 21
Unit cell lengths	210.148, 446.822, 620.282
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	151.747 - 2.946
R-factor	0.2257
Rwork	0.223
R-free	0.27170
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	4y4p
RMSD bond length	0.004
RMSD bond angle	0.885
Data reduction software	XDS
Data scaling software	XSCALE
Phasing software	PHASER
Refinement software	PHENIX (1.14_3260)

Data quality characteristics

	Overall	Inner shell	Outer shell
Low resolution limit [Å]	151.747	151.747	3.120
High resolution limit [Å]	2.946	8.830	2.950
Rmerge	0.285	0.040	2.378
Rmeas	0.320	0.045	2.676
Number of reflections	1203923	45419	191219
<I/σ(I)>	5.59	28.57	0.67
Completeness [%]	99.0	97	97.7
Redundancy	4.717	4.568	4.74
CC(1/2)	0.994	0.998	0.113

Crystallization Conditions

crystal ID	method	pH	temperature	details
1	VAPOR DIFFUSION	7.6	292	0.15 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 9-10.5% MPD, 0.5 mM BME