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Structure of a spliceosome remodeled for exon ligation
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.32 r_long_range_B_refined 19.018 r_long_range_B_other 19.018 r_dihedral_angle_3_deg 14.397 r_dihedral_angle_4_deg 14.129 r_dihedral_angle_1_deg 9.753 r_scangle_other 9.749 r_mcangle_it 9.58 r_mcangle_other 9.58 r_mcbond_it 5.467
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.32 r_long_range_B_refined 19.018 r_long_range_B_other 19.018 r_dihedral_angle_3_deg 14.397 r_dihedral_angle_4_deg 14.129 r_dihedral_angle_1_deg 9.753 r_scangle_other 9.749 r_mcangle_it 9.58 r_mcangle_other 9.58 r_mcbond_it 5.467 r_mcbond_other 5.467 r_scbond_it 5.401 r_scbond_other 5.401 r_angle_refined_deg 1.287 r_angle_other_deg 1.012 r_chiral_restr 0.083 r_bond_refined_d 0.008 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 Saccharomyces cerevisiae spliceosome. Complex C just after Prp16-mediated remodeling
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK III Cryogen Name ETHANE Sample Vitrification Details 3.5 microlitres sample were applied to the grid, left for 25 seconds and then blotted for 3.0-3.5 seconds before plunging.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 65824 Reported Resolution (Å) 3.85 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol FLEXIBLE FIT Refinement Target Fourier Shell Correlation Overall B Value 330 Fitting Procedure Details Used secondary structure restraints generated in ProSMART and LibG.
Data Acquisition Detector Type GATAN K2 SUMMIT (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) 4500 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 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details GIF Quantum energy filter, 20 eV slit width
EM Software Task Software Package Version PARTICLE SELECTION RELION 1.4 CTF CORRECTION CTFFIND 4 MODEL FITTING Coot 0.8.3 INITIAL EULER ASSIGNMENT RELION 1.4 FINAL EULER ASSIGNMENT RELION 1.4 CLASSIFICATION RELION 1.4 RECONSTRUCTION RELION 1.4 MODEL REFINEMENT REFMAC 5.8
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 350000 Selected initial particles automatically using C complex 2D class averages, low-pass filtered to 20 Angstrom for automatic particle picking.