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CryoEM structure of Helicobacter pylori urea channel in closed state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3UX4
Sample urea channel of Helicobacter pylori
Specimen Preparation Sample Aggregation State 2D ARRAY Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 393930 Reported Resolution (Å) 2.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C6
Map-Model Fitting and Refinement Id 1 (3UX4) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value 71.9 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 72
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1400 Maximum Defocus (nm) 2400 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 46730 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Gautomatch 0.56 IMAGE ACQUISITION Leginon 3.1 CTF CORRECTION CTFFIND 4.1.18 MODEL FITTING UCSF Chimera 1.9 INITIAL EULER ASSIGNMENT RELION 2.0 FINAL EULER ASSIGNMENT RELION 2.0 CLASSIFICATION RELION 2.0 RECONSTRUCTION RELION 2.0 MODEL REFINEMENT PHENIX 1.14
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 1221897