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Crystal structure of InhA:01 TCR in complex with HLA-E (S147C) bound to InhA (53-61 H3C)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5W1W 5w1w, 5eu6 experimental model PDB 5EU6 5w1w, 5eu6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293.15 0.1 M Sodium chloride, 0.1 M BIS-TRIS pH 6.5, 1.5 M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.54 51.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.04 α = 90 b = 108.87 β = 90 c = 119.45 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 XE 16M 2019-11-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.65 60.08 99.75 0.141 0.037 0.999 15.2 15 27789
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.7 95.76 2.442 0.657 0.615 1 14.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 5w1w, 5eu6 2.65 60.08 26406 1328 99.54 0.22898 0.22679 0.2268 0.27281 0.2701 RANDOM 78.825
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] 3.11 1.29 -4.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.888 r_dihedral_angle_3_deg 15.874 r_dihedral_angle_4_deg 11.701 r_dihedral_angle_1_deg 6.317 r_long_range_B_refined 1.814 r_long_range_B_other 1.814 r_angle_refined_deg 1.184 r_mcangle_it 1.068 r_mcangle_other 1.068 r_angle_other_deg 1.044
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.888 r_dihedral_angle_3_deg 15.874 r_dihedral_angle_4_deg 11.701 r_dihedral_angle_1_deg 6.317 r_long_range_B_refined 1.814 r_long_range_B_other 1.814 r_angle_refined_deg 1.184 r_mcangle_it 1.068 r_mcangle_other 1.068 r_angle_other_deg 1.044 r_scangle_other 0.847 r_mcbond_it 0.598 r_mcbond_other 0.598 r_scbond_it 0.469 r_scbond_other 0.469 r_chiral_restr 0.032 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6492 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing