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Lipoprotein(a) Kringle IV domain 8 - Lp(a) KIV8 in complex with LY3473329
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I71
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 294 30% PEG 300, 100mM Sodium Acetate pH 4.5
Crystal Properties Matthews coefficient Solvent content 2.03 39.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.755 α = 90 b = 75.179 β = 90 c = 93.314 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 PIXEL DECTRIS PILATUS 6M 2017-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97931 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.01 35 99.3 0.997 14.1 7.3 18167
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.01 2.12 98.7 0.929 7.5
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 MOLECULAR REPLACEMENT THROUGHOUT 2.01 30 17292 869 99.01 0.21898 0.21689 0.2187 0.25973 0.2617 RANDOM 29.11
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] 0.83 -2.95 2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.175 r_dihedral_angle_3_deg 13.46 r_dihedral_angle_4_deg 13.06 r_long_range_B_refined 7.636 r_long_range_B_other 7.571 r_dihedral_angle_1_deg 6.199 r_scangle_other 5.779 r_mcangle_it 4.539 r_scbond_it 4.258 r_scbond_other 4.256
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.175 r_dihedral_angle_3_deg 13.46 r_dihedral_angle_4_deg 13.06 r_long_range_B_refined 7.636 r_long_range_B_other 7.571 r_dihedral_angle_1_deg 6.199 r_scangle_other 5.779 r_mcangle_it 4.539 r_scbond_it 4.258 r_scbond_other 4.256 r_mcbond_it 3.345 r_mcbond_other 3.344 r_angle_refined_deg 1.199 r_angle_other_deg 0.832 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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_mcangle_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 1976 Nucleic Acid Atoms Solvent Atoms 88 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing