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Crystal structure of the indoleamine 2,3-dioxygenase 1 (IDO1) in complex with compound 22
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 0.1 mM Tris pH 8.0, 18% (w/v) PEG6000, 0.2 M NaCl
Crystal Properties Matthews coefficient Solvent content 2.86 56.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.56 α = 90 b = 91.526 β = 90 c = 130.279 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 EIGER X 16M 2016-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.999999701977 SLS X06SA
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 2.58 74.89 98.7 5.1 5.41 5 32082
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 2.58 10 95.8 0.42 4.9
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 NONE 2.58 74.89 31225 857 98.66 0.2172 0.2165 0.2064 0.2428 0.2349 RANDOM 68.596
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] -1.33 0.34 0.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.145 r_dihedral_angle_4_deg 13.512 r_dihedral_angle_3_deg 13.011 r_dihedral_angle_1_deg 5.406 r_angle_refined_deg 1.184 r_angle_other_deg 0.935 r_symmetry_vdw_other 0.195 r_nbd_refined 0.191 r_nbtor_refined 0.165 r_symmetry_vdw_refined 0.145
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.145 r_dihedral_angle_4_deg 13.512 r_dihedral_angle_3_deg 13.011 r_dihedral_angle_1_deg 5.406 r_angle_refined_deg 1.184 r_angle_other_deg 0.935 r_symmetry_vdw_other 0.195 r_nbd_refined 0.191 r_nbtor_refined 0.165 r_symmetry_vdw_refined 0.145 r_nbd_other 0.136 r_xyhbond_nbd_refined 0.123 r_symmetry_hbond_refined 0.117 r_nbtor_other 0.075 r_chiral_restr 0.066 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5949 Nucleic Acid Atoms Solvent Atoms 39 Heterogen Atoms 60
Software Software Software Name Purpose XDS data reduction XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction