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HUMAN LEUKOCYTE ANTIGEN B*07:02 IN COMPLEX WITH MERS-COV EPITOPE N95-103 (A95S mutant)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7LG0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 0.1 M HEPES: NaOH, pH 7.5, 25 % PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.6 52.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.858 α = 90 b = 153.872 β = 90 c = 87.572 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS EIGER X 16M 2023-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-2 0.97934 NSLS-II 17-ID-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.85 29.19 100 0.093 0.101 0.039 0.998 11.9 6.8 40656 23.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.89 100 0.784 0.846 0.316 0.847 2.3 7.1
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 7LG0 1.85 28.92 39413 1217 99.9 0.17088 0.16969 0.1822 0.20956 0.2184 RANDOM 32.23
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] 2.18 -1.76 -0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.529 r_dihedral_angle_4_deg 16.905 r_dihedral_angle_3_deg 12.859 r_long_range_B_other 10.044 r_long_range_B_refined 10.003 r_scangle_other 9.241 r_dihedral_angle_1_deg 7.392 r_scbond_it 7.343 r_scbond_other 7.341 r_mcangle_it 5.849
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.529 r_dihedral_angle_4_deg 16.905 r_dihedral_angle_3_deg 12.859 r_long_range_B_other 10.044 r_long_range_B_refined 10.003 r_scangle_other 9.241 r_dihedral_angle_1_deg 7.392 r_scbond_it 7.343 r_scbond_other 7.341 r_mcangle_it 5.849 r_mcangle_other 5.847 r_mcbond_other 4.737 r_mcbond_it 4.736 r_angle_refined_deg 1.58 r_angle_other_deg 1.378 r_chiral_restr 0.071 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 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 3176 Nucleic Acid Atoms Solvent Atoms 419 Heterogen Atoms 23
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing REFMAC refinement