☰ Navigation Tabs
Crystal structure of InhA:01 TCR in complex with HLA-E (F116C) bound to InhA (53-61 H4C)
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 8.5 293.15 0.1 M Tris pH 8.5, 20% (w/v) PEG 4000, 15% Glycerol
Crystal Properties Matthews coefficient Solvent content 2.42 49.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.81 α = 90 b = 107.89 β = 90 c = 118.42 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 PILATUS 6M-F 2020-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9119 Diamond I04-1
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 2.3 70.81 99.92 0.081 0.022 0.999 19.7 14.8 40998
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 2.3 2.34 98.96 0.84 0.223 0.935 2.7 14.8
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 2.3 60.85 39008 1927 99.77 0.22563 0.22361 0.2319 0.26731 0.2688 RANDOM 55.41
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] 7.84 -3.67 -4.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.76 r_dihedral_angle_3_deg 13.484 r_dihedral_angle_4_deg 12.043 r_dihedral_angle_1_deg 6.726 r_long_range_B_refined 3.068 r_long_range_B_other 3.064 r_mcangle_it 1.85 r_mcangle_other 1.849 r_scangle_other 1.341 r_angle_refined_deg 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.76 r_dihedral_angle_3_deg 13.484 r_dihedral_angle_4_deg 12.043 r_dihedral_angle_1_deg 6.726 r_long_range_B_refined 3.068 r_long_range_B_other 3.064 r_mcangle_it 1.85 r_mcangle_other 1.849 r_scangle_other 1.341 r_angle_refined_deg 1.17 r_angle_other_deg 1.07 r_mcbond_it 1.011 r_mcbond_other 1.011 r_scbond_it 0.74 r_scbond_other 0.739 r_chiral_restr 0.035 r_gen_planes_refined 0.003 r_bond_refined_d 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 6458 Nucleic Acid Atoms Solvent Atoms 99 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing