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Crystal structure of MHC CLass I HLA-A2.1 bound to HIV-1 Peptide RT468-476
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EEY PDB ENTRY 1EEY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 100 MM MES PH 5.5, 20% PEG 1500. CRYSTALS WERE FROZEN IN 100 MM MES, 30% PEG 1500, 10% GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.29 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.215 α = 90 b = 82.774 β = 90.76 c = 79.655 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 CCD ADSC CCD MIRRORS 2007-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 ESRF ID23-1
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 2.1 50 97.6 0.05 8.4 3.8 46009 -3.7 33.03
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 2.1 2.21 97.6 0.2 3.9 3.7
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 1EEY 2.1 19.95 1.41 45960 1985 97.31 0.1787 0.1762 0.1825 0.234 0.2324 39.94
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] -0.6252 0.6627 4.3599 -3.7346
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 18.785 f_angle_d 1.474 f_chiral_restr 0.165 f_bond_d 0.007 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6308 Nucleic Acid Atoms Solvent Atoms 425 Heterogen Atoms 114
Software Software Software Name Purpose PHENIX refinement MOSFLM data reduction TRUNCATE data scaling AMoRE phasing