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YES Complex - E. coli MraY, Protein E ID21, E. coli SlyD
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4J72 experimental model PDB 2K8I
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 3.941 f_angle_d 0.42 f_chiral_restr 0.038 f_plane_restr 0.003 f_bond_d 0.002
Sample YES complex Sample Components Lysis Protein E Dimeric structure of MraY SlyD
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 122452 Reported Resolution (Å) 3.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (4J72, 2K8I) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 5000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v3.2.0+210817 IMAGE ACQUISITION DigitalMicrograph CTF CORRECTION cryoSPARC v3.2.0+210817 MODEL FITTING PHENIX 1.20.1-4487 INITIAL EULER ASSIGNMENT cryoSPARC v3.2.0+210817 FINAL EULER ASSIGNMENT cryoSPARC v3.2.0+210817 CLASSIFICATION cryoSPARC v3.2.0+210817 RECONSTRUCTION cryoSPARC v3.2.0+210817 MODEL REFINEMENT PHENIX 1.20.1-4487 MODEL REFINEMENT ISOLDE 1.2.2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY 11700795