9EYP | pdb_00009eyp

The structure of octameric pore of RN1 variant of actinoporin Fav


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOther 
Sample
Octameric RN1-Fav pore
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK III
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles88194
Reported Resolution (Å)3.05
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC8
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeFEI FALCON III (4k x 4k)
Electron Dose (electrons/Å**2)32
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS GLACIOS
Minimum Defocus (nm)400
Maximum Defocus (nm)2800
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification150000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARCv4
IMAGE ACQUISITIONEPU
CTF CORRECTIONcryoSPARCv4
MODEL FITTINGUCSF ChimeraX1.6
INITIAL EULER ASSIGNMENTcryoSPARCV4
FINAL EULER ASSIGNMENTcryoSPARCv4
CLASSIFICATIONcryoSPARCv4
RECONSTRUCTIONcryoSPARCv4
MODEL REFINEMENTCoot0.98
MODEL REFINEMENTPHENIX1.19
MODEL REFINEMENTISOLDE1.6
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION446027Number of particles after template picking