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Structure of the core of the yeast spliceosome immediately after branching
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.163 r_long_range_B_refined 19.477 r_long_range_B_other 19.477 r_dihedral_angle_3_deg 18.101 r_dihedral_angle_4_deg 13.285 r_dihedral_angle_1_deg 9.412 r_scangle_other 9.208 r_mcangle_it 8.839 r_mcangle_other 8.839 r_scbond_it 5.329
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.163 r_long_range_B_refined 19.477 r_long_range_B_other 19.477 r_dihedral_angle_3_deg 18.101 r_dihedral_angle_4_deg 13.285 r_dihedral_angle_1_deg 9.412 r_scangle_other 9.208 r_mcangle_it 8.839 r_mcangle_other 8.839 r_scbond_it 5.329 r_scbond_other 5.329 r_mcbond_it 4.931 r_mcbond_other 4.93 r_angle_refined_deg 1.252 r_angle_other_deg 1.02 r_chiral_restr 0.089 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample Spliceosome immediately after branching
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK III Cryogen Name ETHANE Sample Vitrification Details 3 microlitres sample were applied to the grid, left for 30 seconds and then blotted for 2.5-3.0 seconds before plunging.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 93106 Reported Resolution (Å) 3.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details Used secondary structure restraints generated in ProSMART and LibG.
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 2
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 4000 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 81000 Calibrated Magnification 35714 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 1.4 CTF CORRECTION CTFFIND 4 MODEL FITTING Coot 0.8.3 MODEL REFINEMENT REFMAC 5.8 INITIAL EULER ASSIGNMENT RELION 1.4 FINAL EULER ASSIGNMENT RELION 1.4 CLASSIFICATION RELION 1.4 RECONSTRUCTION RELION 1.4
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 248000