7D6D

Structural insights into membrane remodeling by SNX1


ELECTRON MICROSCOPY
Sample
sorting nexin 1
Specimen Preparation
Sample Aggregation StateHELICAL ARRAY
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Detailsblot for 3.5 seconds with a blot force 2 before plunging
3D Reconstruction
Reconstruction MethodHELICAL
Number of Particles11795
Reported Resolution (Å)9
Resolution MethodFSC 0.143 CUT-OFF
Other DetailsIHRSR method were used for helical reconstruction and refinement with a range of out of plane tilt considered
Refinement Type
Symmetry TypeHELICAL
Axial SymmetryC1
Axial Rise8.76
Angular Rotation60.13
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement TargetCorrelation coefficient
Overall B Value
Fitting Procedure
DetailsThe temperature was kept at 300K, time step was 1 fs, and secondary structure restraints was also included.
Data Acquisition
Detector TypeFEI FALCON II (4k x 4k)
Electron Dose (electrons/Å**2)25
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification59000
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
IMAGE ACQUISITIONSerialEM
CTF CORRECTIONGctf0.50
MODEL FITTINGUCSF Chimera1.11.2
MODEL REFINEMENTNAMD2.10
INITIAL EULER ASSIGNMENTSPIDER24.08
FINAL EULER ASSIGNMENTSPIDER24.08
CLASSIFICATIONMATLAB2013
RECONSTRUCTIONIHRSR
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTIONCTF was multiplied to each micrographs before tubes selection, and finally CTF amplitude correction was performed following 3D reconstruction476All the segments were selected manually using e2helixboxer.py of EMAN2