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Structure of S.pombe alpha-mannosidase Ams1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6LZ1
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.974 f_angle_d 0.7146 f_chiral_restr 0.0522 f_bond_d 0.0099 f_plane_restr 0.0045
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blot for 5 seconds before plunging
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 75460 Reported Resolution (Å) 3.2 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (6LZ1) Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Correlation coefficient Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 400 Maximum Defocus (nm) 1000 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 SerialEM CTF CORRECTION Gctf 1.06 MODEL FITTING Coot INITIAL EULER ASSIGNMENT RELION 2.1 FINAL EULER ASSIGNMENT RELION 2.1 CLASSIFICATION RELION 2.1 RECONSTRUCTION RELION 2.1 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION