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Structure of the formin Cdc12 bound to the barbed end of phalloidin-stabilized F-actin.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8A2S in silico model AlphaFold experimental model PDB 6T1Y
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.7342 f_angle_d 0.4714 f_chiral_restr 0.039 f_plane_restr 0.0029 f_bond_d 0.0021
Sample Complex of the dimeric FH2 domain of S. Pombe Cdc12 bound to the barbed end of phalloidin stabilized F-actin. Sample Components Actin filament Dimeric FH2 domain of S. Pombe Cdc12 Phalloidin.
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE-PROPANE Sample Vitrification Details 3 seconds, force 0.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 154570 Reported Resolution (Å) 3.56 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement performed in RELION. Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8A2S, 6T1Y) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 64.6
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1200 Maximum Defocus (nm) 2700 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 0.01 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 81000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details 300 kV Titan Krios G2 microscope (Thermo Fisher Scientific) with an in-column Cs-corrector.
EM Software Task Software Package Version PARTICLE SELECTION crYOLO 1.5.8 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND 4.13 MODEL FITTING UCSF ChimeraX 1.5 MODEL FITTING Coot 0.9.8.1 INITIAL EULER ASSIGNMENT cryoSPARC v3.3.2 FINAL EULER ASSIGNMENT RELION 3.1.0 CLASSIFICATION RELION 3.1.0 RECONSTRUCTION RELION 3.1.0 MODEL REFINEMENT Coot 0.9.8.1 MODEL REFINEMENT PHENIX 1.21rc1_5015
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 5200600 Particles picked using SPHIRE-crYOLO.