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Cryo-EM structure of Brr2 in complex with Jab1/MPN and C9ORF78
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4KIT
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.0825 f_angle_d 0.5521 f_chiral_restr 0.044 f_bond_d 0.0054 f_plane_restr 0.0043
Sample Trimeric complex of Brr2, the Jab1/MPN domain of Prp8 and a N-terminal fragment of C9ORF78 Sample Components U5 small nuclear ribonucleoprotein 200 kDa helicase (Brr2) Telomere length and silencing protein 1 homolog (C9ORF78) Pre-mRNA-processing-splicing factor 8 (Prp8) Jab1/MPN Domain
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 370493 Reported Resolution (Å) 2.76 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (4KIT, 4KIT) Refinement Space REAL Refinement Protocol OTHER Refinement Target CC, R.m.s.d. Bonds / Angles Overall B Value 102 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (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) 800 Maximum Defocus (nm) 1800 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 120000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU 2.10 CTF CORRECTION cryoSPARC 3.1 MODEL FITTING PHENIX 1.19.2 MODEL REFINEMENT PHENIX 1.19.2 INITIAL EULER ASSIGNMENT cryoSPARC 3.1 FINAL EULER ASSIGNMENT cryoSPARC 3.1 CLASSIFICATION cryoSPARC 3.1 RECONSTRUCTION cryoSPARC 3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 936716