6T1R

Pseudo-atomic model of a 16-mer assembly of reduced recombinant human alphaA-crystallin (non domain swapped configuration)


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3N3E 
Sample
Reduced recombinant human alphaA-crystallin
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentHOMEMADE PLUNGER
Cryogen NameETHANE
Sample Vitrification DetailsDiluted equilibrated specimen was added to glow-discharged (30s) grids. Sample was blotted 30s after sample application and immediately plunged.
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles19783
Reported Resolution (Å)9.8
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryD4
Map-Model Fitting and Refinement
Id1 (3N3E)
Refinement Space
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
DetailsStructure created by homology modelling using PDB 3N3E and the N-terminal region (1-60) modelled using I-Tasser. The model was refined by flexible fit ...Structure created by homology modelling using PDB 3N3E and the N-terminal region (1-60) modelled using I-Tasser. The model was refined by flexible fitting into the EM density map EMD-4894. The N-terminus is modelled only as CA atoms.
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)30
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1200
Maximum Defocus (nm)2500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification37000
Calibrated Magnification37037
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONEMAN22.0
IMAGE ACQUISITIONTOM
CTF CORRECTIONBsoft
MODEL FITTINGAmber16
RECONSTRUCTIONIMAGIC5
MODEL REFINEMENTAmber16
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING ONLY74068particles were picked manually