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Archaeoglobus fulgidus AfAgo complex with AfAgo-N protein (fAfAgo) bound with 17 nt RNA guide and 17 nt DNA target
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8OK9
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.184 f_angle_d 0.621 f_chiral_restr 0.044 f_plane_restr 0.005 f_bond_d 0.004
Sample Heterodimeric AfAgo and AfAgo-N complex with 17 nt RNA guide and 17 nt DNA target Sample Components AfAgo AfAgo-N DNA target oligonucleotide 5'p-RNA guide
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 364005 Reported Resolution (Å) 3.43 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8ok9, 8ok9) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 48 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 31
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS GLACIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model OTHER Nominal Magnification 92000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC v.4.2.1 IMAGE ACQUISITION EPU 3 MASKING UCSF Chimera 1.17.1 CTF CORRECTION cryoSPARC v.4.2.1 MODEL FITTING UCSF Chimera 1.17.1 OTHER Coot 0.9 INITIAL EULER ASSIGNMENT cryoSPARC v.4.2.1 FINAL EULER ASSIGNMENT cryoSPARC v.4.2.1 CLASSIFICATION cryoSPARC v.4.2.1 RECONSTRUCTION cryoSPARC v.4.2.1 MODEL REFINEMENT PHENIX 1.18.2_3874:
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 1480423 Blob particle picking