9D7R

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Fva1 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and 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	NSLS-II BEAMLINE 17-ID-1
Synchrotron site	NSLS-II
Beamline	17-ID-1
Temperature [K]	100
Detector technology	PIXEL
Collection date	2024-03-15
Detector	DECTRIS EIGER X 9M
Wavelength(s)	1.033202
Spacegroup name	P 21 21 21
Unit cell lengths	210.390, 451.410, 623.940
Unit cell angles	90.00, 90.00, 90.00

Refinement procedure

Resolution	37.020 - 2.700
R-factor	0.2287
Rwork	0.226
R-free	0.27530
Structure solution method	MOLECULAR REPLACEMENT
Starting model (for MR)	6xhw
RMSD bond length	0.004
RMSD bond angle	0.821
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]	37.460	37.460	2.770
High resolution limit [Å]	2.700	12.070	2.700
Rmerge	0.236	0.035	1.772
Rmeas	0.261	0.039	1.964
Total number of observations	8376402
Number of reflections	1553365	17200	114959
<I/σ(I)>	7.05	32.73	0.87
Completeness [%]	96.9	90.6	97.3
Redundancy	5.392	5.486	5.274
CC(1/2)	0.983	0.998	0.135

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