5GAN

The overall structure of the yeast spliceosomal U4/U6.U5 tri-snRNP at 3.7 Angstrom


ELECTRON MICROSCOPY

Refinement

RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined39.339
r_long_range_B_other39.339
r_dihedral_angle_2_deg34.729
r_scangle_other29.671
r_mcangle_it26.846
r_mcangle_other26.846
r_scbond_it18.106
r_scbond_other18.103
r_mcbond_it17.542
r_mcbond_other17.542
RMS Deviations
KeyRefinement Restraint Deviation
r_long_range_B_refined39.339
r_long_range_B_other39.339
r_dihedral_angle_2_deg34.729
r_scangle_other29.671
r_mcangle_it26.846
r_mcangle_other26.846
r_scbond_it18.106
r_scbond_other18.103
r_mcbond_it17.542
r_mcbond_other17.542
r_dihedral_angle_3_deg16.896
r_dihedral_angle_1_deg13.269
r_dihedral_angle_4_deg12.506
r_angle_refined_deg1.339
r_angle_other_deg0.982
r_chiral_restr0.172
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.002
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
The overall structure of the yeast spliceosomal U4/U6.U5 tri-snRNP
Specimen Preparation
Sample Aggregation StatePARTICLE
3D Reconstruction
Reconstruction MethodSINGLE PARTICLE
Number of Particles140155
Reported Resolution (Å)3.7
Resolution MethodFSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry TypePOINT
Point SymmetryC1
Map-Model Fitting and Refinement
Id1
Refinement SpaceRECIPROCAL
Refinement Protocol
Refinement Target
Overall B Value
Fitting Procedure
Details
Data Acquisition
Detector TypeGATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å**2)38
Imaging Experiment1
Date of Experiment
Temperature (Kelvin)
Microscope ModelFEI TITAN KRIOS
Minimum Defocus (nm)500
Maximum Defocus (nm)3500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS2
Imaging ModeBRIGHT FIELD
Specimen Holder ModelFEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification81000
Calibrated Magnification35714
SourceFIELD EMISSION GUN
Acceleration Voltage (kV)300
Imaging Details
EM Software
TaskSoftware PackageVersion
PARTICLE SELECTIONRELION1.4
CTF CORRECTIONCTFFIND4
MODEL FITTINGCoot0.8.3
MODEL REFINEMENTREFMAC5.8
INITIAL EULER ASSIGNMENTRELION1.4
FINAL EULER ASSIGNMENTRELION1.4
CLASSIFICATIONRELION
RECONSTRUCTIONRELION1.4
Image Processing
CTF Correction TypeCTF Correction DetailsNumber of Particles SelectedParticle Selection Details
PHASE FLIPPING ONLY473827