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 3J3Y | pdb_00003j3y

Atomic-level structure of the entire HIV-1 capsid (186 hexamers + 12 pentamers)


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3J34 
Sample
HIV-1 core with A14C/E45C cross-linked capsid protein
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentHOMEMADE PLUNGER
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodTOMOGRAPHY
Number of Particles
Reported Resolution (Å)
Resolution Method
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1 (3J34)
Refinement SpaceREAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
DetailsREFINEMENT PROTOCOL--FLEXIBLE DETAILS--The model was built using hexamer of hexamers (PDB entry 3J34) and pentamer of hexamers (computer-based MD mod ...REFINEMENT PROTOCOL--FLEXIBLE DETAILS--The model was built using hexamer of hexamers (PDB entry 3J34) and pentamer of hexamers (computer-based MD model available upon request).
Data Acquisition
Detector TypeGATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å**2)120
Imaging Experiment1
Date of Experiment2010-09-11
Temperature (Kelvin)82
Microscope ModelFEI POLARA 300
Minimum Defocus (nm)8000
Maximum Defocus (nm)8000
Minimum Tilt Angle (degrees)-70
Maximum Tilt Angle (degrees)66
Nominal CS2
Imaging ModeBRIGHT FIELD
Specimen Holder ModelSIDE ENTRY, EUCENTRIC
Nominal Magnification39000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
MODEL FITTINGMD
RECONSTRUCTIONTOMO3D