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Crystal structure of LMP2 peptide from EBV in complex with HLA-A*11:01
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 290 0.2 M Ammonium acetate, 20% PEG4000
Crystal Properties Matthews coefficient Solvent content 2.44 49.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.353 α = 90 b = 67.646 β = 90 c = 115.603 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 IMAGE PLATE MAR scanner 345 mm plate 2015-03-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54178
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.3 58.38 99.7 2.01 4.7 26775
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.3 58.38 18879 990 99.69 0.19854 0.19463 0.2002 0.27314 0.2804 RANDOM 31.596
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] -1.55 0.87 0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_4_deg 19.341 r_dihedral_angle_3_deg 18.624 r_long_range_B_refined 8.293 r_long_range_B_other 8.29 r_dihedral_angle_1_deg 7.083 r_scangle_other 4.518 r_mcangle_it 3.601 r_mcangle_other 3.601 r_scbond_it 2.852
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.123 r_dihedral_angle_4_deg 19.341 r_dihedral_angle_3_deg 18.624 r_long_range_B_refined 8.293 r_long_range_B_other 8.29 r_dihedral_angle_1_deg 7.083 r_scangle_other 4.518 r_mcangle_it 3.601 r_mcangle_other 3.601 r_scbond_it 2.852 r_scbond_other 2.85 r_mcbond_it 2.301 r_mcbond_other 2.298 r_angle_refined_deg 1.699 r_angle_other_deg 1.042 r_chiral_restr 0.106 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3113 Nucleic Acid Atoms Solvent Atoms 258 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement SADABS data reduction SADABS data scaling PHASER phasing