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human diabetogenic TCR T1D3 in complex with DQ8-p8E9E peptide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 278 10% PEG 8000, 100mM cacodylate pH6.2, 400mM NaCl
Crystal Properties Matthews coefficient Solvent content 2.92 57.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.705 α = 90 b = 88.896 β = 104.26 c = 116.777 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS3 S 6M 2017-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.979100 APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.03 50 98.1 14.4 4.5 142449
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.03 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.03 50.01 135207 7241 99.23 0.18273 0.18083 0.1887 0.21657 0.2209 RANDOM 49.024
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] -0.6 1.09 0.5 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.424 r_dihedral_angle_3_deg 17.622 r_dihedral_angle_4_deg 17.346 r_dihedral_angle_1_deg 8.284 r_long_range_B_refined 5.89 r_long_range_B_other 5.89 r_scangle_other 4.412 r_mcangle_it 3.109 r_mcangle_other 3.109 r_scbond_it 2.961
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.424 r_dihedral_angle_3_deg 17.622 r_dihedral_angle_4_deg 17.346 r_dihedral_angle_1_deg 8.284 r_long_range_B_refined 5.89 r_long_range_B_other 5.89 r_scangle_other 4.412 r_mcangle_it 3.109 r_mcangle_other 3.109 r_scbond_it 2.961 r_scbond_other 2.96 r_angle_refined_deg 2.493 r_mcbond_it 2.14 r_mcbond_other 2.14 r_angle_other_deg 1.796 r_chiral_restr 0.158 r_bond_refined_d 0.028 r_gen_planes_refined 0.014 r_bond_other_d 0.009 r_gen_planes_other 0.007 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 12872 Nucleic Acid Atoms Solvent Atoms 775 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing