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A Local Refined Structure for Sld7 in Complex with Dbf4-bound Mcm6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details integrative model Other
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.775 f_angle_d 0.438 f_chiral_restr 0.039 f_bond_d 0.003 f_plane_restr 0.003
Sample MCM-DH in complex with DDK, Sld3-Sld7, and Cdc45
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 125402 Reported Resolution (Å) 3.25 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol Refinement Target Overall B Value 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) 1000 Maximum Defocus (nm) 3000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 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
EM Software Task Software Package Version PARTICLE SELECTION Gautomatch v0.56 IMAGE ACQUISITION EPU CTF CORRECTION RELION 4.0.1 CTF CORRECTION cryoSPARC 4.1.2 MODEL FITTING UCSF ChimeraX 1.7 INITIAL EULER ASSIGNMENT cryoSPARC 4.1.2 FINAL EULER ASSIGNMENT cryoSPARC 4.1.2 CLASSIFICATION RELION 4.0.1 RECONSTRUCTION cryoSPARC 4.1.2 MODEL REFINEMENT PHENIX 2.0-5936
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION