9OFH | pdb_00009ofh

Extended conformation of dusk state KaiC


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 8JON 

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d10.6383
f_angle_d0.3641
f_chiral_restr0.0396
f_plane_restr0.0026
f_bond_d0.0014
Sample
KaiC hexamer
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles501579
Reported Resolution (Å)2.59
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC6
Map-Model Fitting and Refinement
Id1 (8JON)
Refinement Space
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K3 BIOCONTINUUM (6k x 4k)
Electron Dose (electrons/Å**2)50
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelTFS KRIOS
Minimum Defocus (nm)500
Maximum Defocus (nm)2200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
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 SELECTIONcryoSPARC4.2.1
IMAGE ACQUISITIONSerialEM4.1
CTF CORRECTIONcryoSPARC4.2.1
MODEL FITTINGUCSF ChimeraX1.8
MODEL REFINEMENTCoot0.9.8.95
MODEL REFINEMENTISOLDE1.8
MODEL REFINEMENTPHENIX1.21.2_5419
INITIAL EULER ASSIGNMENTcryoSPARC4.4.1
FINAL EULER ASSIGNMENTcryoSPARC4.4.1
CLASSIFICATIONcryoSPARC4.4.1
RECONSTRUCTIONcryoSPARC4.4.1
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION5642652