3J1Q | pdb_00003j1q

Structure of AAV-DJ, a Retargeted Gene Therapy Vector: Cryo-Electron Microscopy at 4.5A resolution


ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1LP3 
Sample
Adeno-associated virus DJ
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK I
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles27312
Reported Resolution (Å)4.5
Resolution MethodFSC 0.143 CUT-OFF
Other DetailsFrealign was used for particle refinement in the reconstruction
Refinement Type
Symmetry TypePOINT
Point SymmetryI
Map-Model Fitting and Refinement
Id1 (1LP3)
Refinement SpaceREAL
Refinement ProtocolOTHER
Refinement TargetCross-correlation coefficient
Overall B Value30
Fitting Procedure
DetailsREFINEMENT PROTOCOL--simulated annealing torsion angle dynamics, isotropic B-factor refinement DETAILS--Iterative refinement in RSRef and model build ...REFINEMENT PROTOCOL--simulated annealing torsion angle dynamics, isotropic B-factor refinement DETAILS--Iterative refinement in RSRef and model building in Coot
Data Acquisition
Imaging Experiment1
Date of Experiment2011-02-25
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder ModelOTHER
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
MODEL FITTINGCNS
MODEL FITTINGRSRef
RECONSTRUCTIONFREALIGN
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
CTF was estimated using Appion software