8C8G

Cryo-EM structure of BoNT/Wo-NTNH complex


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.295
r_long_range_B_refined21.068
r_long_range_B_other21.068
r_dihedral_angle_3_deg15.091
r_dihedral_angle_4_deg14.827
r_scangle_other12.688
r_mcangle_it10.749
r_mcangle_other10.748
r_scbond_it7.249
r_scbond_other7.247
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.295
r_long_range_B_refined21.068
r_long_range_B_other21.068
r_dihedral_angle_3_deg15.091
r_dihedral_angle_4_deg14.827
r_scangle_other12.688
r_mcangle_it10.749
r_mcangle_other10.748
r_scbond_it7.249
r_scbond_other7.247
r_dihedral_angle_1_deg7.229
r_mcbond_it6.486
r_mcbond_other6.484
r_angle_other_deg1.463
r_angle_refined_deg1.357
r_chiral_restr0.068
r_bond_refined_d0.011
r_gen_planes_refined0.007
r_gen_planes_other0.003
r_bond_other_d
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
Botulinum neurotoxin-like protein from Weissella oryzae in complex with its non-toxic non-hemagglutinin partner protein
Specimen Preparation
Sample Aggregation StatePARTICLE
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
Vitrification InstrumentFEI VITROBOT MARK IV
Cryogen NameETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles283452
Reported Resolution (Å)2.98
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Map-Model Fitting and Refinement
Id1
Refinement SpaceREAL
Refinement ProtocolAB INITIO MODEL
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)40
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)1600
Maximum Defocus (nm)3200
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging ModeBRIGHT FIELD
Specimen Holder Model
Nominal Magnification165000
Calibrated Magnification
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONcryoSPARC2
IMAGE ACQUISITIONEPU
CTF CORRECTIONcryoSPARC2
MODEL REFINEMENTPHENIX
INITIAL EULER ASSIGNMENTcryoSPARC2
FINAL EULER ASSIGNMENTcryoSPARC2
CLASSIFICATIONcryoSPARC2
RECONSTRUCTIONcryoSPARC2
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION635143