6R0Y

Thermus thermophilus V/A-type ATPase/synthase, rotational state 3


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5Y5Y 
experimental modelPDB 5Y5X 
Sample
Thermus thermophilus V/A-type ATPase/ATP synthase
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles23821
Reported Resolution (Å)3.9
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5Y, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X, 5Y5X)
Refinement SpaceREAL
Refinement Protocol
Refinement Target
Overall B Value112.5
Fitting Procedure
Details
Data Acquisition
Detector TypeFEI FALCON III (4k x 4k)
Electron Dose (electrons/Å**2)50
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1000
Maximum Defocus (nm)2000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification75000
Calibrated Magnification129032
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONRELION3.0 beta
IMAGE ACQUISITIONEPU
CTF CORRECTIONCTFFIND4.1.5
MODEL FITTINGUCSF Chimera1.13.1
INITIAL EULER ASSIGNMENTRELION3.0 beta
FINAL EULER ASSIGNMENTRELION3.0 beta
CLASSIFICATIONRELION3.0 beta
RECONSTRUCTIONRELION3.0 beta
MODEL REFINEMENTPHENIX1.12
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION181245