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Three-dimensional reconstruction of human LRP6 ectodomain complexed with Dkk1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4DG6 experimental model PDB 3S2K
Sample Human LRP6 ectodomain complexed with full length of Dkk1 Sample Components LRP6 ectodomain Human Dickkopf-related protein1
Specimen Preparation Sample Aggregation State PARTICLE Staining Type NONE Staining Material Uranyl acetate Staining Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 5390 Reported Resolution (Å) 21 Resolution Method FSC 0.5 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (4DG6, 3S2K, 3S2K) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type TVIPS TEMCAM-F224 (2k x 2k) Electron Dose (electrons/Å**2) 20
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model HITACHI H-9500SD Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.8 Imaging Mode BRIGHT FIELD Specimen Holder Model SIDE ENTRY, EUCENTRIC Nominal Magnification 80000 Calibrated Magnification Source LAB6 Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION SPIDER & WEB 17 IMAGE ACQUISITION EM-Menu 4 CTF CORRECTION SPIDER MODEL FITTING Chimera 1.10.1 INITIAL EULER ASSIGNMENT SPIDER FINAL EULER ASSIGNMENT SPIDER CLASSIFICATION SPIDER RECONSTRUCTION SPIDER
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION This was not done for RCT but for following single-particle reconstruction 10974 tilt pairs for RCT