8OZH

In situ cryoEM structure of Prototype Foamy Virus Env trimer


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined26.404
r_long_range_B_other26.402
r_scangle_other22.32
r_mcangle_it17.219
r_mcangle_other17.217
r_dihedral_angle_3_deg15.819
r_scbond_it15.787
r_scbond_other15.785
r_mcbond_it13.418
r_mcbond_other13.416
RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined26.404
r_long_range_B_other26.402
r_scangle_other22.32
r_mcangle_it17.219
r_mcangle_other17.217
r_dihedral_angle_3_deg15.819
r_scbond_it15.787
r_scbond_other15.785
r_mcbond_it13.418
r_mcbond_other13.416
r_dihedral_angle_2_deg9.06
r_dihedral_angle_1_deg6.105
r_angle_refined_deg1.566
r_angle_other_deg1.006
r_chiral_restr0.068
r_bond_refined_d0.014
r_gen_planes_refined0.004
r_gen_planes_other0.004
r_bond_other_d
r_dihedral_angle_4_deg
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Sample
Eastern chimpanzee simian foamy virus
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK III
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles286827
Reported Resolution (Å)2.91
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC3
Map-Model Fitting and Refinement
Id1
Refinement SpaceRECIPROCAL
Refinement ProtocolFLEXIBLE FIT
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)48
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1000
Maximum Defocus (nm)4000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2.7
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcrYOLO
IMAGE ACQUISITIONEPU
CTF CORRECTIONGctf
INITIAL EULER ASSIGNMENTRELION
FINAL EULER ASSIGNMENTRELION
RECONSTRUCTIONRELION
MODEL REFINEMENTREFMAC
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION2103361