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F11 T-Cell Receptor Recognising PKYVKQNTLKLAT Peptide Presented by HLA-DR*0101
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6EH6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 20% PEG 4K, 20% 2-Propanol, 0.1M HEPES
Crystal Properties Matthews coefficient Solvent content 2.53 51.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.49 α = 90 b = 115.36 β = 90 c = 50.86 γ = 90
Symmetry Space Group P 21 21 2
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 2012-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9200 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.62 47.81 99.9 0.049 0.053 0.999 20.6 6.6 64727
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.62 1.66 100 0.768 0.833 0.801 7
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 6EH6 1.62 47.81 61390 3280 99.86 0.18022 0.17854 0.1885 0.21144 0.2232 RANDOM 26.873
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] 0.38 0.5 -0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.23 r_dihedral_angle_4_deg 16.888 r_dihedral_angle_3_deg 14.461 r_dihedral_angle_1_deg 7.117 r_long_range_B_refined 5.926 r_long_range_B_other 5.826 r_scangle_other 2.223 r_angle_refined_deg 1.902 r_mcangle_it 1.658 r_mcangle_other 1.658
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.23 r_dihedral_angle_4_deg 16.888 r_dihedral_angle_3_deg 14.461 r_dihedral_angle_1_deg 7.117 r_long_range_B_refined 5.926 r_long_range_B_other 5.826 r_scangle_other 2.223 r_angle_refined_deg 1.902 r_mcangle_it 1.658 r_mcangle_other 1.658 r_scbond_it 1.485 r_scbond_other 1.481 r_angle_other_deg 1.063 r_mcbond_it 1.011 r_mcbond_other 1.008 r_chiral_restr 0.121 r_bond_refined_d 0.017 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.002 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 3493 Nucleic Acid Atoms Solvent Atoms 427 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement XDS data reduction xia2 data reduction Aimless data scaling PHASER phasing