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Crystal structure of HARS WHEP domain fused with Fc
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5VH5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 5.5 289 100mM BIS-TRIS pH 5.5, 25% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.89 57.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.943 α = 90 b = 112.984 β = 90.37 c = 110.211 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 PIXEL DECTRIS EIGER X 16M 2019-07-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97918 SSRF BL17U1
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 2.79 50 99.9 0.165 0.181 0.073 0.99 6 6 36360
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 2.8 2.85 100 1.785 1.954 0.788 0.639 5.8
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 5VH5 2.79 49.58 33853 1706 97.34 0.21869 0.21683 0.2195 0.25634 0.2596 RANDOM 67.981
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] -0.36 0.68 4.73 -4.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.458 r_dihedral_angle_3_deg 19.948 r_dihedral_angle_4_deg 19.345 r_long_range_B_refined 15.303 r_long_range_B_other 15.302 r_scangle_other 9.708 r_mcangle_it 8.322 r_mcangle_other 8.321 r_dihedral_angle_1_deg 6.636 r_scbond_it 5.947
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.458 r_dihedral_angle_3_deg 19.948 r_dihedral_angle_4_deg 19.345 r_long_range_B_refined 15.303 r_long_range_B_other 15.302 r_scangle_other 9.708 r_mcangle_it 8.322 r_mcangle_other 8.321 r_dihedral_angle_1_deg 6.636 r_scbond_it 5.947 r_scbond_other 5.947 r_mcbond_other 5.339 r_mcbond_it 5.338 r_angle_refined_deg 1.442 r_angle_other_deg 1.155 r_chiral_restr 0.059 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001 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 7973 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling HKL-2000 data reduction PHASER phasing