9MB0 | pdb_00009mb0

Cryo-EM structure of Dengue virus serotype2 THSTI/TRC/01 strain bound with J9 fab


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
in silico modelSwissModel 
in silico modelAlphaFold 
Sample
dengue virus type 2 bound with J9 fab
Sample Components
dengue virus type 2
monoclonal antibody J9
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles668
Reported Resolution (Å)7.21
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryI
Map-Model Fitting and Refinement
Id1
Refinement Space
Refinement ProtocolRIGID BODY FIT
Refinement Targetmap correlation
Overall B Value
Fitting Procedure
Detailsmap-correlation= 0.9013
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)48
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TALOS ARCTICA
Minimum Defocus (nm)1250
Maximum Defocus (nm)2750
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification36000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONRELION4.0.1
IMAGE ACQUISITIONLatitude
CTF CORRECTIONcryoSPARC4.6.0
MODEL FITTINGUCSF Chimera1.17
INITIAL EULER ASSIGNMENTcryoSPARC4.6.0
FINAL EULER ASSIGNMENTcryoSPARC4.6.0
CLASSIFICATIONRELION4.0.1
RECONSTRUCTIONcryoSPARC4.6.0
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION10108