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C. elegans TIR-1 protein.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Refinement RMS Deviations Key Refinement Restraint Deviation r_lrange_it 42.699 r_dihedral_angle_2_deg 32.533 r_scangle_it 24.411 r_dihedral_angle_4_deg 19.338 r_mcangle_it 17.83 r_scbond_it 14.708 r_dihedral_angle_3_deg 14.068 r_mcbond_it 10.522 r_dihedral_angle_1_deg 7.033 r_angle_refined_deg 1.834
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 42.699 r_dihedral_angle_2_deg 32.533 r_scangle_it 24.411 r_dihedral_angle_4_deg 19.338 r_mcangle_it 17.83 r_scbond_it 14.708 r_dihedral_angle_3_deg 14.068 r_mcbond_it 10.522 r_dihedral_angle_1_deg 7.033 r_angle_refined_deg 1.834 r_nbtor_refined 0.292 r_nbd_refined 0.206 r_chiral_restr 0.14 r_ncsr_local_group_2 0.139 r_ncsr_local_group_5 0.138 r_ncsr_local_group_4 0.137 r_ncsr_local_group_1 0.134 r_ncsr_local_group_7 0.132 r_ncsr_local_group_6 0.131 r_ncsr_local_group_3 0.13 r_ncsr_local_group_8 0.13 r_ncsr_local_group_18 0.114 r_ncsr_local_group_17 0.112 r_ncsr_local_group_9 0.11 r_ncsr_local_group_33 0.11 r_ncsr_local_group_21 0.109 r_ncsr_local_group_16 0.108 r_ncsr_local_group_19 0.107 r_ncsr_local_group_20 0.107 r_ncsr_local_group_12 0.105 r_ncsr_local_group_27 0.105 r_ncsr_local_group_30 0.103 r_ncsr_local_group_23 0.102 r_ncsr_local_group_31 0.101 r_ncsr_local_group_11 0.1 r_ncsr_local_group_26 0.1 r_ncsr_local_group_28 0.1 r_ncsr_local_group_32 0.099 r_ncsr_local_group_15 0.098 r_ncsr_local_group_22 0.098 r_ncsr_local_group_29 0.097 r_ncsr_local_group_10 0.094 r_ncsr_local_group_24 0.093 r_ncsr_local_group_35 0.093 r_ncsr_local_group_13 0.091 r_ncsr_local_group_14 0.09 r_ncsr_local_group_36 0.09 r_ncsr_local_group_25 0.087 r_ncsr_local_group_34 0.084 r_xyhbond_nbd_refined 0.082 r_gen_planes_refined 0.014 r_bond_refined_d 0.01
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 121487 Reported Resolution (Å) 3.82 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 Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 41.4
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2800 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU MODEL FITTING Coot 9.6 MODEL FITTING ISOLDE 1.5 INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT cryoSPARC MODEL REFINEMENT REFMAC 5 MODEL REFINEMENT UCSF ChimeraX 1.5 MODEL REFINEMENT ISOLDE 1.5
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 370021