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Cryo-EM structure of the ATV RNAP Inhibitory Protein (RIP) bound to the DNA-binding channel of the host's RNA polymerase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7OH0 experimental model PDB 3FAJ
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 4.258 f_angle_d 0.53 f_chiral_restr 0.044 f_plane_restr 0.004 f_bond_d 0.003
Sample Complex of archaeal RNA-polymerase with the ATV inhibitory protein RIP
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blotting force: -10
blotting time: 2 sec
wait time: 0 sec
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 151237 Reported Resolution (Å) 3.27 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7OH0, 3FAJ) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target correlation coefficient Overall B Value 81.4405 Fitting Procedure Details The C-terminal tail of RIP was manually built in Coot after the first refinement run.
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 45.5
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) -1000 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 sample holder was tilted of -30 degrees for the entire data collection
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.0 IMAGE ACQUISITION EPU CTF CORRECTION Gctf MODEL FITTING PHENIX 1.19 INITIAL EULER ASSIGNMENT cryoSPARC 2.0 FINAL EULER ASSIGNMENT cryoSPARC 2.0 CLASSIFICATION cryoSPARC 2.0 RECONSTRUCTION RELION 3.0 MODEL REFINEMENT PHENIX 1.19
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 600640