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Crystal structure of the binary complex between HLA-A2 and HCMV NLV-T8A peptide variant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 9-20% PEG 6000, 0.1M tri-Na Citrate, 0-0.1M NaCl, pH 6.5, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.63 53.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.61 α = 90 b = 79.879 β = 116.33 c = 57.893 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 QUANTUM 4 2008-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 50 93.1 0.034 0.034 28.45 3.7 46082 25.566
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.86 76.3 0.258 0.258 5.7 3.6 3043
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.81 14.5 46082 41305 4184 99.66 0.195 0.195 0.194 0.1974 0.227 RANDOM 23.282
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.489 r_dihedral_angle_4_deg 15.432 r_dihedral_angle_3_deg 14.265 r_dihedral_angle_1_deg 5.436 r_scangle_it 2.111 r_scbond_it 1.407 r_angle_refined_deg 1.062 r_mcangle_it 1.035 r_mcbond_it 0.61 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.489 r_dihedral_angle_4_deg 15.432 r_dihedral_angle_3_deg 14.265 r_dihedral_angle_1_deg 5.436 r_scangle_it 2.111 r_scbond_it 1.407 r_angle_refined_deg 1.062 r_mcangle_it 1.035 r_mcbond_it 0.61 r_nbtor_refined 0.294 r_symmetry_vdw_refined 0.255 r_nbd_refined 0.187 r_symmetry_hbond_refined 0.169 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3307 Nucleic Acid Atoms Solvent Atoms 304 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction