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The human non-classical major histocompatibility complex molecule HLA-E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MHE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.3 293 19% PEG 3350, 0.3M NaCl, 0.1M Tris, pH 7.3, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.52 α = 90 b = 62.301 β = 106.15 c = 98.769 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C APS 14-BM-C
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 2.5 50 0.098 12.2 32033
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) 2.5 2.565 0.344 2.7 2065
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 1MHE 2.5 29.6 30365 1620 98.59 0.20374 0.20018 0.2085 0.26936 0.274 RANDOM 30.031
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] 0.59 -2.55 -1.94 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.081 r_dihedral_angle_4_deg 25.71 r_dihedral_angle_3_deg 17.02 r_scangle_it 6.884 r_scbond_it 6.824 r_dihedral_angle_1_deg 4.917 r_mcangle_it 4.765 r_mcbond_it 4.252 r_angle_refined_deg 2.354 r_angle_other_deg 1.264
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.081 r_dihedral_angle_4_deg 25.71 r_dihedral_angle_3_deg 17.02 r_scangle_it 6.884 r_scbond_it 6.824 r_dihedral_angle_1_deg 4.917 r_mcangle_it 4.765 r_mcbond_it 4.252 r_angle_refined_deg 2.354 r_angle_other_deg 1.264 r_mcbond_other 1.065 r_symmetry_vdw_other 0.303 r_nbd_other 0.254 r_nbd_refined 0.253 r_xyhbond_nbd_refined 0.21 r_nbtor_refined 0.209 r_symmetry_hbond_refined 0.196 r_symmetry_vdw_refined 0.195 r_chiral_restr 0.153 r_nbtor_other 0.108 r_xyhbond_nbd_other 0.053 r_bond_refined_d 0.034 r_gen_planes_refined 0.013 r_bond_other_d 0.008 r_gen_planes_other 0.003 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6266 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement