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1.93 A cryo-EM structure of streptavidin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5N7X
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.792 r_dihedral_angle_4_deg 24.32 r_lrange_it 18.084 r_lrange_other 18.071 r_dihedral_angle_3_deg 15.777 r_scangle_it 9.337 r_scangle_other 9.33 r_mcangle_it 9.031 r_mcangle_other 9.025 r_dihedral_angle_1_deg 8.244
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.792 r_dihedral_angle_4_deg 24.32 r_lrange_it 18.084 r_lrange_other 18.071 r_dihedral_angle_3_deg 15.777 r_scangle_it 9.337 r_scangle_other 9.33 r_mcangle_it 9.031 r_mcangle_other 9.025 r_dihedral_angle_1_deg 8.244 r_scbond_it 5.519 r_scbond_other 5.513 r_mcbond_other 5.262 r_mcbond_it 5.257 r_angle_refined_deg 1.696 r_angle_other_deg 1.446 r_symmetry_nbd_refined 0.218 r_nbd_other 0.181 r_symmetry_nbd_other 0.178 r_nbtor_refined 0.169 r_nbd_refined 0.166 r_symmetry_xyhbond_nbd_refined 0.166 r_xyhbond_nbd_refined 0.118 r_chiral_restr 0.09 r_symmetry_nbtor_other 0.08 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 19045 Reported Resolution (Å) 1.93 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (5N7X) Refinement Space RECIPROCAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 70
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.1 IMAGE ACQUISITION SerialEM CTF CORRECTION CTFFIND 4.1.13 MODEL FITTING MOLREP INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT REFMAC 5.8.0272
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION