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Human CD73 (ecto 5'-nucleotidase) in complex with compound 6 (ORIC-533)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Proprietary model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 SPG buffer 0.1M pH4.0, 15% Peg 1500
Crystal Properties Matthews coefficient Solvent content 2.5 50.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 230.962 α = 90 b = 93.03 β = 90 c = 54.955 γ = 90
Symmetry Space Group P 21 21 2
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 2019-10-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99987 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.28 115.48 98.6 0.087 0.998 14.44 5.2 54311
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) 1 2.28 2.53 99.2 0.43 5.1
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 2.28 115.48 52983 1327 98.59 0.19942 0.19816 0.2026 0.2518 0.251 RANDOM 45.449
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] -1.24 0.5 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.787 r_dihedral_angle_4_deg 20.483 r_dihedral_angle_3_deg 12.712 r_long_range_B_other 7.451 r_long_range_B_refined 7.445 r_dihedral_angle_1_deg 7.061 r_scangle_other 4.584 r_scbond_it 3.252 r_scbond_other 3.227 r_mcangle_it 2.784
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.787 r_dihedral_angle_4_deg 20.483 r_dihedral_angle_3_deg 12.712 r_long_range_B_other 7.451 r_long_range_B_refined 7.445 r_dihedral_angle_1_deg 7.061 r_scangle_other 4.584 r_scbond_it 3.252 r_scbond_other 3.227 r_mcangle_it 2.784 r_mcangle_other 2.784 r_mcbond_it 1.877 r_mcbond_other 1.874 r_angle_refined_deg 1.654 r_angle_other_deg 1.294 r_chiral_restr 0.092 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 8199 Nucleic Acid Atoms Solvent Atoms 446 Heterogen Atoms 152
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement REFMAC phasing PDB_EXTRACT data extraction