9EC3 | pdb_00009ec3

Cryo-EM structure of the ribosome-tunnel occluding hibernation factor bound to the Mycobacterium tuberculosis C- 70S ribosome carrying fMet-tRNA(fMet) and deacylated tRNA at ribosome P and E sites.

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7MT7

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	13.562
f_angle_d	0.61
f_chiral_restr	0.036
f_plane_restr	0.006
f_bond_d	0.004

Sample
Ribosome-tunnel occluding hibernation factor bound to the Mycobacterium tuberculosis C- 70S ribosome carrying fMet-tRNA(fMet) and deacylated tRNA at ribosome P and E sites and mRNA.

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	81757
Reported Resolution (Å)	3.29
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1 (7MT7)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	Cross-corelation coefficient
Overall B Value	101.9
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	51.65

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	500
Maximum Defocus (nm)	2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model	FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification	105000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	cryoSPARC	v4.4.0
MODEL REFINEMENT	PHENIX	1.20.1_4487:
CTF CORRECTION	cryoSPARC	v4.4.0
FINAL EULER ASSIGNMENT	cryoSPARC	v4.4.0
CLASSIFICATION	cryoSPARC	v4.4.0
RECONSTRUCTION	cryoSPARC	v4.4.0

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION		5378072