☰ Navigation Tabs
Archaeoglobus fulgidus AfAgo complex with AfAgo-N protein (fAfAgo) bound with 30 nt RNA guide and 51 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 19.032 f_angle_d 0.565 f_chiral_restr 0.043 f_plane_restr 0.005 f_bond_d 0.003
Sample AfAgo and AfAgo-N complex with 30 nt RNA guide and 51 nt DNA target Sample Components Piwi protein Archaeoglobus fulgidus AfAgo-N protein RNA (30-MER) DNA (51-MER)
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 498038 Reported Resolution (Å) 2.81 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 RIGID BODY FIT Refinement Target Overall B Value 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 MODEL REFINEMENT PHENIX 1.18.2_3874: IMAGE ACQUISITION EPU 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
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 2326555 Blob particle picking