4BLF

Variable internal flexibility characterizes the helical capsid formed by Agrobacterium VirE2 protein on single-stranded DNA.


ELECTRON MICROSCOPY
Sample
CRYOEM RECONSTRUCTION OF THE AGROBACTERIUM T-COMPLEX
Specimen Preparation
Sample Aggregation StateHELICAL ARRAY
Vitrification InstrumentHOMEMADE PLUNGER
Cryogen NameETHANE
Sample Vitrification DetailsVITRIFICATION 1 -- CRYOGEN- ETHANE, HUMIDITY- 95, INSTRUMENT- HOMEMADE PLUNGER
3D Reconstruction
Reconstruction MethodHELICAL
Number of Particles8019
Reported Resolution (Å)20
Resolution Method
Other DetailsPARTICLES WERE PRE-SELECTED USING XMIPP, AND RECONSTRUCTION WAS CARRIED OUT USING IHRSR PROGRAM IMPLEMENTED IN THE SPIDER PACKAGE. THIS ATOMIC STRUCTU ...PARTICLES WERE PRE-SELECTED USING XMIPP, AND RECONSTRUCTION WAS CARRIED OUT USING IHRSR PROGRAM IMPLEMENTED IN THE SPIDER PACKAGE. THIS ATOMIC STRUCTURE WAS FITTED INTO THE CRYOEM ENVELOPE USING FITPDB2EM. SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2339. (DEPOSITION ID: 11520).
Refinement Type
Symmetry TypeHELICAL
Map-Model Fitting and Refinement
Id1 (3BTP)
Refinement SpaceRECIPROCAL
Refinement ProtocolRIGID BODY FIT
Refinement TargetCross-correlation coefficient
Overall B Value
Fitting Procedure
DetailsMETHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY
Data Acquisition
Detector TypeGENERIC TVIPS
Electron Dose (electrons/Å**2)20
Imaging Experiment1
Date of Experiment2008-06-06
Temperature (Kelvin)
Microscope ModelFEI TECNAI F20
Minimum Defocus (nm)1000
Maximum Defocus (nm)3200
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 FITTINGfitPDB2EM
RECONSTRUCTIONBsoft
RECONSTRUCTIONEMAN
RECONSTRUCTIONIHRSR
RECONSTRUCTIONSPIDER
RECONSTRUCTIONXmipp
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE-FLIPPING