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The complex between TCR A6 and human Class I MHC HLA-A2 with the modified TAX (Y5F) peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GJ6 PDB ENTRY 2GJ6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 297 PEG 24%, TRIS 0.1 M, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.66 53.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 224.008 α = 90 b = 48.098 β = 91.02 c = 92.959 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE MAR scanner 300 mm plate 2010-08-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F APS 21-ID-F
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.29 30 99.1 0.066 25.5 5.7 44526 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.29 2.34 98.5 0.598 5.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2GJ6 2.29 20 44995 44464 2244 98.8 0.221 0.218 0.2185 0.271 0.2685 RANDOM, 5% 58.856
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] -4.32 1.41 8.1 -3.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.662 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 19.701 r_dihedral_angle_1_deg 7.207 r_angle_refined_deg 1.55 r_mcangle_it 1.469 r_scangle_it 1.2 r_mcbond_it 0.91 r_scbond_it 0.816 r_nbtor_refined 0.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.662 r_dihedral_angle_4_deg 20.689 r_dihedral_angle_3_deg 19.701 r_dihedral_angle_1_deg 7.207 r_angle_refined_deg 1.55 r_mcangle_it 1.469 r_scangle_it 1.2 r_mcbond_it 0.91 r_scbond_it 0.816 r_nbtor_refined 0.317 r_xyhbond_nbd_refined 0.212 r_symmetry_hbond_refined 0.178 r_nbd_refined 0.124 r_chiral_restr 0.113 r_symmetry_vdw_refined 0.097 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6639 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms 66
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing