4UIF | pdb_00004uif

Cryo-EM structure of Dengue virus serotype 2 in complex with antigen-binding fragments of human antibody 2D22

ELECTRON MICROSCOPY

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3J27

Sample
DENGUE VIRUS SEROTYPE 2 STRAIN PVP94-07 COMPLEXED WITH FAB FRAGMENTS OF HUMAN ANTIBODY 2D22.

Specimen Preparation
Sample Aggregation State	PARTICLE
Vitrification Instrument	FEI VITROBOT MARK IV
Cryogen Name	ETHANE
Sample Vitrification Details	VITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 100, INSTRUMENT- FEI VITROBOT MARK IV, METHOD- BLOTTED WITH FILTER PAPER FOR 2 SECONDS PRIOR TO SNAP FREEZING,

3D Reconstruction
Reconstruction Method	SINGLE PARTICLE
Number of Particles	2485
Reported Resolution (Å)	6.5
Resolution Method
Other Details	SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2967. (DEPOSITION ID: 13277).
Refinement Type
Symmetry Type	POINT
Point Symmetry	I

Map-Model Fitting and Refinement
Id	1 (3J27)
Refinement Space	REAL
Refinement Protocol	FLEXIBLE FIT
Refinement Target	REAL-SPACE CORRELATION
Overall B Value
Fitting Procedure
Details	METHOD--FLEXIBLE FITTING USING MDFF-NAMD REFINEMENT PROTOCOL--CRYO-EM

Data Acquisition
Detector Type	FEI FALCON II (4k x 4k)
Electron Dose (electrons/Å**2)	20

Imaging Experiment	1
Date of Experiment	2014-02-05
Temperature (Kelvin)	100
Microscope Model	FEI TITAN KRIOS
Minimum Defocus (nm)	1500
Maximum Defocus (nm)	4700
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS	2.7
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	47000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	300
Imaging Details

EM Software
Task	Software Package	Version
MODEL FITTING	MDFF
MODEL FITTING	NAMD
MODEL FITTING	UCSF Chimera
RECONSTRUCTION	EMAN	1
RECONSTRUCTION	EMAN	2
RECONSTRUCTION	MPSA

Image Processing
CTF Correction Type	CTF Correction Details	Number of Particles Selected	Particle Selection Details
	EACH PARTICLE