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Structure of the Bacteriophage PhiKZ non-virion RNA Polymerase bound to an analogue of its promoter
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold in silico model Other experimental model PDB 7OGP experimental model PDB 7OGR
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 14.1078 f_angle_d 0.4102 f_chiral_restr 0.039 f_plane_restr 0.0033 f_bond_d 0.0029
Sample PhiKZ non-virion RNA polymerase bound to an analogue of promoter p119L
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Settings: -4 blot force, 4 s waiting time and 0.5-1 s blotting time.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 329400 Reported Resolution (Å) 2.59 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7OGP, 7OGR) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target CC Overall B Value 104.82 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 50
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 750 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 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 EMAN IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4 MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT RELION 4 FINAL EULER ASSIGNMENT RELION 4 CLASSIFICATION RELION 4 RECONSTRUCTION RELION 4 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 4178816