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T cell receptor-p53-HLA-A2 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3UTP 3utp, 3vxt, 5d2l experimental model PDB 3VXT 3utp, 3vxt, 5d2l experimental model PDB 5D2L 3utp, 3vxt, 5d2l
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 295 12% (w/v) PEG 8000, 0.1 M magnesium acetate
Crystal Properties Matthews coefficient Solvent content 3.14 60.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 118.13 α = 90 b = 118.13 β = 90 c = 153.129 γ = 120
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 6M 2019-11-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0 APS 23-ID-D
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 3 48.8 97.1 0.11 7.4 2.6 47556
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 3 3.11 0.477
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 3utp, 3vxt, 5d2l 3 48.52 43889 2260 97.15 0.1642 0.1618 0.1531 0.2108 0.1996 RANDOM 53.444
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] -3.62 -3.62 7.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.802 r_dihedral_angle_3_deg 20.489 r_dihedral_angle_4_deg 18.499 r_dihedral_angle_1_deg 7.597 r_angle_refined_deg 1.533 r_chiral_restr 0.108 r_bond_refined_d 0.006 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12740 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing PDB_EXTRACT data extraction