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MicroED Structure of TLR2 TIR domain-induced MyD88 TIR domain higher-order assembly
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7BEQ
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.07 α = 90 b = 30.64 β = 107.81 c = 53.67 γ = 90
Symmetry Space Group C 1 2 1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B ELECTRON CRYSTALLOGRAPHY FREE R-VALUE 2.85 19.99 1.36 3253 153 87.78 0.2558 0.2554 0.269 0.2669 0.2871 64.46
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.3441 f_angle_d 0.6173 f_chiral_restr 0.0433 f_plane_restr 0.0056 f_bond_d 0.003
Software Software Software Name Purpose XDS data processing XSCALE data scaling
Sample Myeloid differentiation primary response 88 Toll/interleukin-1 receptor/resistance domain (MyD88 TIR).
Specimen Preparation Sample Aggregation State 3D ARRAY Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method CRYSTALLOGRAPHY Number of Particles Reported Resolution (Å) 2.85 Resolution Method DIFFRACTION PATTERN/LAYERLINES Other Details Refinement Type Symmetry Type 3D CRYSTAL Space Group Name Length a 98.07 Length b 30.64 Length c 30.64 Angle Alpha 90 Angle Beta 107.81 Angle Gamma 90
Map-Model Fitting and Refinement Id 1 (7beq) Refinement Space Refinement Protocol Refinement Target Overall B Value 64.46 Fitting Procedure Details
Data Acquisition Detector Type FEI CETA (4k x 4k) Electron Dose (electrons/Å**2) 0.138
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode DIFFRACTION Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL FITTING PHENIX 20.1 MODEL REFINEMENT PHENIX 20.1 MOLECULAR REPLACEMENT PHENIX 20.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE