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Single-Particle Cryo-EM Structure of Arabinosyltransferase EmbB from Mycobacterium smegmatis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PTY
Sample Integral membrane indolylacetylinositol arabinosyltransferase EmbB
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 57970 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Combined with K2 dataset Refinement Type Symmetry Type POINT Number of Particles 57970 Reported Resolution (Å) 3.3 Resolution Method FSC 0.143 CUT-OFF Other Details Combined with Falcon III dataset Refinement Type Symmetry Type POINT Point Symmetry C1 Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3PTY) Refinement Space Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 78.02 77.53
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 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Gautomatch 0.53 IMAGE ACQUISITION Leginon 3.4 CTF CORRECTION cryoSPARC 2 CTF CORRECTION RELION 2.1 CTF CORRECTION cisTEM 1 MODEL FITTING UCSF Chimera 1.13 MODEL FITTING Coot 0.8 INITIAL EULER ASSIGNMENT cryoSPARC 2 FINAL EULER ASSIGNMENT cryoSPARC 2 RECONSTRUCTION cryoSPARC 2 PARTICLE SELECTION Gautomatch 0.53 CTF CORRECTION cryoSPARC 2 CTF CORRECTION RELION 2.1 CTF CORRECTION cisTEM 1 INITIAL EULER ASSIGNMENT cryoSPARC 2 FINAL EULER ASSIGNMENT cryoSPARC 2 RECONSTRUCTION cryoSPARC 2 MODEL REFINEMENT PHENIX 1.14
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 162271 PHASE FLIPPING AND AMPLITUDE CORRECTION 700201