4CCT

Dengue 1 cryo-EM reconstruction


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1TG8 
Sample
MATURE DENGUE VIRUS 1
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification DetailsLIQUID ETHANE
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles6412
Reported Resolution (Å)4.5
Resolution Method
Other DetailsFTER MODELING THE STRUCTURES WERE REGULARIZED USING MOLECULAR DYNAMICS WITH FLEXIBLE MOLECULAR DYNAMICS WITH FLEXIBLE FITTING PROTOCOL. SUBMISSION BAS ...FTER MODELING THE STRUCTURES WERE REGULARIZED USING MOLECULAR DYNAMICS WITH FLEXIBLE MOLECULAR DYNAMICS WITH FLEXIBLE FITTING PROTOCOL. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2142.(DEPOSITION ID: 10897).
Refinement Type
Symmetry TypePOINT
Point SymmetryI
Map-Model Fitting and Refinement
Id1 (1TG8)
Refinement SpaceREAL
Refinement ProtocolOTHER
Refinement Target
Overall B Value
Fitting Procedure
DetailsMETHOD--LOCAL CORRELATION REFINEMENT PROTOCOL--X-RAY
Data Acquisition
Detector TypeGATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å**2)18
Imaging Experiment1
Date of Experiment2011-12-16
Temperature (Kelvin)100
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)989
Maximum Defocus (nm)3441
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification75000
Calibrated Magnification75000
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
MODEL FITTINGUCSF Chimera
RECONSTRUCTIONEMAN1
RECONSTRUCTIONEMAN2
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
WIENER FILTER WEIGHTING EACH PARTICLE DURING 3D RECONSTRUCTION