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Human Class I MHC HLA-A2 in complex with the Peptidomimetic ELA-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GT9 PDB entry 2GT9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 PEG3350 24%, MES 0.025M, KCl 0.1M, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 46.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.16 α = 90 b = 84.244 β = 90.14 c = 84.123 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.98 APS 19-BM
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 1.7 20 99.4 0.91 14.9 3.6 89204 88669 1 1 17.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.76 98.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2GT9 1.7 20 89255 88612 4435 99.28 0.18164 0.18164 0.17968 0.1892 0.21852 0.2245 RANDOM 24.86
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] -0.6 1.08 -0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.244 r_dihedral_angle_4_deg 20.405 r_dihedral_angle_3_deg 15.091 r_dihedral_angle_1_deg 6.768 r_scangle_it 4.556 r_scbond_it 2.824 r_mcangle_it 1.769 r_angle_refined_deg 1.704 r_mcbond_it 0.954 r_chiral_restr 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.244 r_dihedral_angle_4_deg 20.405 r_dihedral_angle_3_deg 15.091 r_dihedral_angle_1_deg 6.768 r_scangle_it 4.556 r_scbond_it 2.824 r_mcangle_it 1.769 r_angle_refined_deg 1.704 r_mcbond_it 0.954 r_chiral_restr 0.14 r_bond_refined_d 0.016 r_gen_planes_refined 0.01 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6312 Nucleic Acid Atoms Solvent Atoms 672 Heterogen Atoms 30
Software Software Software Name Purpose SBC-Collect data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling