5U4I

Structural Basis of Co-translational Quality Control by ArfA and RF2 Bound to Ribosome

ELECTRON MICROSCOPY

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Refinement

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	43.405
r_lrange_it	23.169
r_dihedral_angle_1_deg	20.843
r_dihedral_angle_3_deg	17.728
r_dihedral_angle_4_deg	12.773
r_mcangle_it	8.66
r_scangle_it	7.075
r_mcbond_it	4.708
r_paralell_plane_angle_deg	4.108
r_scbond_it	4.088
r_angle_refined_deg	0.947
r_nbtor_refined	0.273
r_nbd_refined	0.156
r_chiral_restr	0.129
r_xyhbond_nbd_refined	0.128
r_ext_dist_refined_d	0.106
r_metal_ion_refined	0.099
r_bond_refined_d	0.005
r_gen_planes_refined	0.005

Sample
Non-stop ribosomal complex with ArfA and RF2
Sample Components
30S subunit
50S subunit
Alternative ribosome-rescue factor A
Peptide chain release factor 2
P-site or E-site fMet-tRNA(fMet)
mRNA
23S rRNA
50S ribosomal protein L2
16S rRNA
30S ribosomal protein S2
30S ribosomal protein S3
30S ribosomal protein S4
30S ribosomal protein S5
30S ribosomal protein S6
30S ribosomal protein S7
30S ribosomal protein S8
30S ribosomal protein S9
30S ribosomal protein S10
30S ribosomal protein S11
30S ribosomal protein S12
30S ribosomal protein S13
30S ribosomal protein S14
30S ribosomal protein S15
30S ribosomal protein S16
30S ribosomal protein S17
30S ribosomal protein S18
30S ribosomal protein S19
30S ribosomal protein S20
30S ribosomal protein S21
50S ribosomal protein L3
50S ribosomal protein L4
50S ribosomal protein L5
50S ribosomal protein L6
50S ribosomal protein L9
50S ribosomal protein L11
50S ribosomal protein L13
50S ribosomal protein L14
50S ribosomal protein L15
50S ribosomal protein L16
50S ribosomal protein L17
50S ribosomal protein L18
50S ribosomal protein L19
50S ribosomal protein L20
50S ribosomal protein L21
50S ribosomal protein L22
50S ribosomal protein L23
50S ribosomal protein L24
50S ribosomal protein L25
50S ribosomal protein L27
50S ribosomal protein L28
50S ribosomal protein L29
50S ribosomal protein L30
50S ribosomal protein L32
50S ribosomal protein L33
50S ribosomal protein L34
50S ribosomal protein L35
50S ribosomal protein L36
5S rRNA

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	155440
Reported Resolution (Å)	3.5
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT
Point Symmetry	C1

Map-Model Fitting and Refinement
Id	1
Refinement Space	RECIPROCAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	Average FSC
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	JEOL 3200FSC
Minimum Defocus (nm)	700
Maximum Defocus (nm)	3000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification	83822
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
PARTICLE SELECTION	RELION	1.4
CTF CORRECTION	CTFFIND	4
MODEL FITTING	UCSF Chimera
INITIAL EULER ASSIGNMENT	RELION	2.0
FINAL EULER ASSIGNMENT	RELION	2.0
RECONSTRUCTION	RELION	2.0
MODEL REFINEMENT	REFMAC	5.8

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