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Crystal Structure of HLA B*3501 in complex with influenza NP418 epitope from 1934 strain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FYY pdb entry 2FYY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 15-25% PEG 4000, 0.2M NH4Acetate, 0.1M Na-Citrate, pH 5.6, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.57 52.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.99 α = 90 b = 81.91 β = 90 c = 110.6 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 CCD ADSC QUANTUM 210r 2009-11-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 1.0000 Australian Synchrotron MX2
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 1.8 65.82 99.9 0.085 19.28 43699 -3 26.376
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) 1.8 1.9 100 0.407 5.4
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 pdb entry 2FYY 1.8 65.82 43699 2196 99.88 0.2 0.198 0.2102 0.238 0.2485 RANDOM 22.069
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] -0.37 -0.96 1.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.804 r_dihedral_angle_4_deg 20.258 r_dihedral_angle_3_deg 14.148 r_dihedral_angle_1_deg 6.093 r_scangle_it 2.948 r_scbond_it 1.894 r_angle_refined_deg 1.315 r_mcangle_it 1.168 r_mcbond_it 0.661 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.804 r_dihedral_angle_4_deg 20.258 r_dihedral_angle_3_deg 14.148 r_dihedral_angle_1_deg 6.093 r_scangle_it 2.948 r_scbond_it 1.894 r_angle_refined_deg 1.315 r_mcangle_it 1.168 r_mcbond_it 0.661 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3167 Nucleic Acid Atoms Solvent Atoms 254 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction Bue data collection XDS data reduction