9FY1 | pdb_00009fy1

Structure of CliM-stalled Bacillus subtilis 70S ribosome with release factor bound in the A-site

ELECTRON MICROSCOPY

---

Refinement

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	14.453
r_long_range_B_refined	14.161
r_long_range_B_other	14.161
r_scangle_other	10.309
r_mcangle_it	10.025
r_mcangle_other	10.025
r_dihedral_angle_2_deg	8.078
r_dihedral_angle_1_deg	7.763
r_scbond_it	6.544
r_scbond_other	6.544
r_mcbond_it	6.389
r_mcbond_other	6.388
r_angle_refined_deg	1.616
r_angle_other_deg	0.595
r_chiral_restr	0.066
r_gen_planes_refined	0.011
r_bond_refined_d	0.006
r_gen_planes_other	0.002
r_bond_other_d	0.001
r_dihedral_angle_4_deg
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Sample
Structure of CliM-stalled Bacillus subtilis 70S ribosome with release factor bound in the A-site
Sample Components
Bacillus subtilis 70S ribosome
Nascent Chain CliM
mRNA

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument
Cryogen Name	ETHANE-PROPANE
Sample Vitrification Details

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	348223
Reported Resolution (Å)	2.3
Resolution Method	FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type	POINT

Map-Model Fitting and Refinement
Id	1
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details

Data Acquisition
Detector Type	GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å**2)	1.14

Imaging Experiment	1
Date of Experiment
Temperature (Kelvin)
Microscope Model	TFS KRIOS
Minimum Defocus (nm)	300
Maximum Defocus (nm)	900
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
MODEL REFINEMENT	REFMAC	5.8.0415

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