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Cryo-EM of the complex between human uromodulin (UMOD)/Tamm-Horsfall protein (THP) and the FimH lectin domain from uropathogenic E. coli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7PFP experimental model PDB 6GTW
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.4731 f_angle_d 0.6714 f_chiral_restr 0.0497 f_plane_restr 0.0047 f_bond_d 0.0033
Sample Complex of human uromodulin (UMOD)/Tamm-Horsfall protein (THP) and the lectin domain of the FimH adhesin of uropathogenic E. coli Sample Components Uromodulin Type 1 fimbiral adhesin FimH
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 225819 Reported Resolution (Å) 7.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (7PFP, 6GTW, 6GTW) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 396.23 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 3.08 IMAGE ACQUISITION EPU 2.12 CTF CORRECTION RELION 3.08 MODEL FITTING UCSF Chimera 1.15 MODEL FITTING Coot 0.9.6 CLASSIFICATION RELION 3.08 RECONSTRUCTION RELION 3.08 MODEL REFINEMENT PHENIX 1.19.2-4158
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3767790