☰ Navigation Tabs
Cryo-EM of native human uromodulin (UMOD)/Tamm-Horsfall protein (THP) filament.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WRN
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.8267 f_angle_d 0.5465 f_chiral_restr 0.038 f_plane_restr 0.0037 f_bond_d 0.0027
Sample Uromodulin (UMOD)/Tamm-Horsfall protein (THP)
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method HELICAL Number of Particles 288403 Reported Resolution (Å) 3.35 Resolution Method OTHER Other Details PHENIX ResolveCryoEM FSCref=0.5 Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 62.5 Angular Rotation 180
Map-Model Fitting and Refinement Id 1 (4WRN, 4WRN) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 115.88 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN 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 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU 1.24 CTF CORRECTION Gctf 1.06 MODEL FITTING UCSF Chimera 1.13 MODEL FITTING Coot 0.9 MODEL FITTING ISOLDE 1.0b5 MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT RELION 3.0.5 FINAL EULER ASSIGNMENT RELION 3.0.5 CLASSIFICATION RELION 3.0.5 RECONSTRUCTION RELION 3.0.5 RECONSTRUCTION PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 412322