1THD

COMPLEX ORGANIZATION OF DENGUE VIRUS E PROTEIN AS REVEALED BY 9.5 ANGSTROM CRYO-EM RECONSTRUCTION


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1TG8 
Sample
DENGUE VIRUS
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification Instrument
Cryogen Name
Sample Vitrification DetailsSAMPLES WERE PREPARED AS THIN LAYERS OF VITREOUS ICE AND MAINTAINED AT LIQUID NITROGEN TEMPERATURE IN THE ELECTRON MICROSCOPE
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles
Reported Resolution (Å)9.5
Resolution Method
Other DetailsTHE RECONSTRUCTION WAS COMPUTED FROM 1691 DENGUE VIRUS IMAGES THAT WERE SELECTED FROM 78 MICROGRAPHS. ORIENTATIONS WERE DETERMINED BY THE MODEL-BASED ...THE RECONSTRUCTION WAS COMPUTED FROM 1691 DENGUE VIRUS IMAGES THAT WERE SELECTED FROM 78 MICROGRAPHS. ORIENTATIONS WERE DETERMINED BY THE MODEL-BASED POLAR-FOURIER TRANSFORM METHOD (BAKER AND CHENG, 1996, J.STRUCT.BIOL. 116, 120-130) AND REFINED BY THE MODEL-BASED FOURIER TRANSFORM REFINEMENT PROCEDURE (HTTP://BOND.CS.UCF.EDU/COMPUTATIONALBIOLOGY/PROJECTS/POR/HOME.HTML).
Refinement Type
Symmetry TypePOINT
Point SymmetryI
Map-Model Fitting and Refinement
Id1 (1TG8)
Refinement Space
Refinement ProtocolOTHER
Refinement Target
Overall B Value
Fitting Procedure
DetailsMETHOD--please see citation
Data Acquisition
Detector TypeKODAK SO-163 FILM
Electron Dose (electrons/Å**2)27
Imaging Experiment1
Date of Experiment2000-06-27
Temperature (Kelvin)87
Microscope ModelFEI/PHILIPS CM200T
Minimum Defocus (nm)800
Maximum Defocus (nm)4800
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification50000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)200
Imaging Details
EM Software
TaskSoftware PackageVersion
MODEL FITTINGEMfit
RECONSTRUCTIONPOR
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
EACH VIRAL IMAGE WAS CTF CORRECTED BEFORE RECONSTRUCTION, BASED ON THE FOLLOWING EQUATION: F(CORR)=F(OBS)/[|CTF|+WIENER*(1-|CTF|)]