8P2H | pdb_00008p2h

Staphylococcus aureus 70S ribosome with elongation factor G locked with fusidic acid with a tRNA in pe/E chimeric state


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7NHM 
experimental modelPDB 2XEX 
experimental modelPDB 7SSD 
Sample
Staphylococcus aureus 70S ribosome with elongation factor G and fusidic acid
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles178679
Reported Resolution (Å)2.49
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Map-Model Fitting and Refinement
Id1 (7NHM, 2XEX, 7SSD)
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å**2)30.83
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS KRIOS
Minimum Defocus (nm)800
Maximum Defocus (nm)1400
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification105000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARCv3.3.1+220118
IMAGE ACQUISITIONEPU
CTF CORRECTIONcryoSPARCv3.3.1+220118
MODEL FITTINGUCSF ChimeraX1.5
INITIAL EULER ASSIGNMENTcryoSPARCv3.3.1+220118
FINAL EULER ASSIGNMENTcryoSPARCv3.3.1+220118
CLASSIFICATIONcryoSPARCv3.3.1+220118
RECONSTRUCTIONcryoSPARCv3.3.1+220118
MODEL REFINEMENTCoot0.9.8.5
MODEL REFINEMENTPHENIX1.20.1-4487-000
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION488382