9WV1 | pdb_00009wv1

Human TIM22 complex wtih substrate GGC1-sfGFP


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelAlphaFold 
Sample
Human TIM22 complex wtih substrate GGC1-sfGFP
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details1.5 s blot time, 5 s wait time, 100% humidity, and 6 degree centigrade
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles250094
Reported Resolution (Å)3.1
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
DetailsRigid body fitting in ChimeraX and then flexible fitting in Coot
Data Acquisition
Detector TypeFEI FALCON IV (4k x 4k)
Electron Dose (electrons/Å**2)60
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS KRIOS
Minimum Defocus (nm)1200
Maximum Defocus (nm)1600
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification130000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARC4.6
IMAGE ACQUISITIONEPU3 5 1.6034
CTF CORRECTIONcryoSPARC4.6
MODEL FITTINGUCSF ChimeraX1.8
MODEL FITTINGCoot0.9.8.96
INITIAL EULER ASSIGNMENTcryoSPARC4.6
RECONSTRUCTIONcryoSPARC4.6
MODEL REFINEMENTPHENIX1.20.1-4487
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION5385617