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Structure of MurJ in complex with single gene lysis protein from phage PP7
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6CC4 in silico model AlphaFold AF-P0AF16-F1-v4
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.561 f_angle_d 0.7 f_chiral_restr 0.044 f_bond_d 0.005 f_plane_restr 0.005
Sample MurJ in complex with single gene lysis protein from phage PP7 Sample Components soluble cytochrome b562, lipid II flippase MurJ fusion single gene lysis protein from phage PP7
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 67547 Reported Resolution (Å) 3.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (6CC4) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 70
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 3000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.5.3 IMAGE ACQUISITION SerialEM 4.1.1 CTF CORRECTION cryoSPARC 4.5.3 MODEL FITTING Coot 0.9.8 RECONSTRUCTION cryoSPARC 4.5.3 MODEL REFINEMENT PHENIX 1.21_5207
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION