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Human CD73 (ecto 5'-nucleotidase) in complex with compound 7
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 2.55 51.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 231.987 α = 90 b = 94.009 β = 90 c = 55.522 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 PILATUS 6M 2018-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9795 Diamond I04-1
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 2.4 115.99 98 0.155 0.996 8.34 3.3 47591
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.65 98 0.429 0.917 2.51 3.3
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 2.4 115.99 46484 1107 97.99 0.21449 0.21351 0.2187 0.25464 0.258 RANDOM 38.932
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] -1.78 2.56 -0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.571 r_dihedral_angle_4_deg 16.05 r_dihedral_angle_3_deg 13.223 r_long_range_B_refined 7.348 r_long_range_B_other 7.333 r_dihedral_angle_1_deg 6.669 r_scangle_other 5.568 r_scbond_it 4.377 r_mcangle_other 4.3 r_mcangle_it 4.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.571 r_dihedral_angle_4_deg 16.05 r_dihedral_angle_3_deg 13.223 r_long_range_B_refined 7.348 r_long_range_B_other 7.333 r_dihedral_angle_1_deg 6.669 r_scangle_other 5.568 r_scbond_it 4.377 r_mcangle_other 4.3 r_mcangle_it 4.296 r_scbond_other 4.288 r_mcbond_it 3.012 r_mcbond_other 3.002 r_angle_other_deg 2.775 r_angle_refined_deg 1.513 r_chiral_restr 0.078 r_gen_planes_other 0.022 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 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 8224 Nucleic Acid Atoms Solvent Atoms 372 Heterogen Atoms 120
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PDB_EXTRACT data extraction REFMAC phasing