☰ Navigation Tabs
Structure of E8 TCR in complex in human MR1 bound to 5FSA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5U6Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.2 M Sodium fluoride, 0.1 M Bis-Tris propane pH 8.5, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 3.08 60.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.46 α = 90 b = 104.42 β = 90 c = 117.57 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 2020-07-09 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) Rrim I (All) 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 1.84 58.79 99.98 0.087 0.09 0.023 1 15.5 14.7 98078
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.84 1.87 98.8 4.221 4.452 1.377 0.323 0.4 9.9
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 5U6Q 1.84 58.79 93125 4871 99.9 0.20948 0.20714 0.2144 0.25456 0.2612 RANDOM 54.508
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] 1 3.71 -4.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.326 r_dihedral_angle_3_deg 14.77 r_dihedral_angle_4_deg 14.024 r_long_range_B_refined 7.842 r_long_range_B_other 7.834 r_dihedral_angle_1_deg 7.824 r_scangle_other 5.908 r_mcangle_other 4.481 r_mcangle_it 4.48 r_scbond_it 4.181
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.326 r_dihedral_angle_3_deg 14.77 r_dihedral_angle_4_deg 14.024 r_long_range_B_refined 7.842 r_long_range_B_other 7.834 r_dihedral_angle_1_deg 7.824 r_scangle_other 5.908 r_mcangle_other 4.481 r_mcangle_it 4.48 r_scbond_it 4.181 r_scbond_other 4.181 r_mcbond_it 3.331 r_mcbond_other 3.321 r_angle_refined_deg 1.45 r_angle_other_deg 1.244 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 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 6418 Nucleic Acid Atoms Solvent Atoms 345 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing