data_XK8 # _chem_comp.id XK8 _chem_comp.name "3-[2-(3-{[2,4-diamino-6-(4-hydroxybutyl)pyrimidin-5-yl]oxy}propoxy)phenyl]propanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H28 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-11-23 _chem_comp.pdbx_modified_date 2023-12-08 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 404.460 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XK8 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 8F84 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal XK8 C1 C1 C 0 1 Y N N N N N -0.940 -9.186 13.040 5.883 -1.649 -0.019 C1 XK8 1 XK8 C2 C2 C 0 1 Y N N N N N -0.492 -11.354 12.498 3.970 -2.064 1.199 C2 XK8 2 XK8 C3 C3 C 0 1 Y N N N N N -0.652 -11.731 13.883 3.349 -0.982 0.563 C3 XK8 3 XK8 C4 C4 C 0 1 N N N N N N -1.127 -14.189 13.659 1.032 -1.338 0.155 C4 XK8 4 XK8 C5 C5 C 0 1 N N N N N N -0.724 -15.436 14.408 -0.328 -0.748 0.533 C5 XK8 5 XK8 C6 C6 C 0 1 N N N N N N -0.967 -15.384 15.896 -1.433 -1.492 -0.221 C6 XK8 6 XK8 C7 C7 C 0 1 Y N N N N N -2.787 -15.152 17.460 -3.799 -1.493 -0.454 C7 XK8 7 XK8 C10 C8 C 0 1 Y N N N N N -3.759 -14.981 20.042 -6.028 -2.607 -1.655 C10 XK8 8 XK8 C11 C9 C 0 1 Y N N N N N -4.621 -14.896 18.964 -6.175 -1.566 -0.759 C11 XK8 9 XK8 C12 C10 C 0 1 Y N N N N N -4.167 -14.976 17.649 -5.064 -1.007 -0.157 C12 XK8 10 XK8 C13 C11 C 0 1 N N N N N N -5.113 -14.882 16.462 -5.226 0.128 0.820 C13 XK8 11 XK8 C14 C12 C 0 1 N N N N N N -6.472 -15.531 16.676 -5.046 1.460 0.089 C14 XK8 12 XK8 C15 C13 C 0 1 N N N N N N -7.448 -15.250 15.544 -5.208 2.596 1.067 C15 XK8 13 XK8 C16 C14 C 0 1 Y N N N N N -1.002 -10.719 14.771 4.072 -0.267 -0.376 C16 XK8 14 XK8 C17 C15 C 0 1 N N N N N N -1.244 -10.963 16.235 3.447 0.906 -1.087 C17 XK8 15 XK8 C18 C16 C 0 1 N N N N N N -2.709 -11.170 16.616 3.819 2.200 -0.359 C18 XK8 16 XK8 C19 C17 C 0 1 N N N N N N -2.922 -11.550 18.073 3.279 3.398 -1.142 C19 XK8 17 XK8 C20 C18 C 0 1 N N N N N N -2.479 -10.510 19.070 3.650 4.692 -0.414 C20 XK8 18 XK8 C8 C19 C 0 1 Y N N N N N -1.922 -15.238 18.540 -3.653 -2.538 -1.354 C8 XK8 19 XK8 C9 C20 C 0 1 Y N N N N N -2.416 -15.152 19.827 -4.767 -3.093 -1.953 C9 XK8 20 XK8 N1 N1 N 0 1 N N N N N N -1.078 -7.908 12.627 7.194 -1.985 -0.320 N1 XK8 21 XK8 N2 N2 N 0 1 Y N N N N N -0.623 -10.088 12.102 5.225 -2.363 0.883 N2 XK8 22 XK8 N3 N3 N 0 1 N N N N N N -0.150 -12.254 11.536 3.286 -2.810 2.148 N3 XK8 23 XK8 N4 N4 N 0 1 Y N N N N N -1.140 -9.444 14.350 5.323 -0.620 -0.636 N4 XK8 24 XK8 O1 O1 O 0 1 N N N N N N -0.574 -13.045 14.339 2.064 -0.644 0.859 O1 XK8 25 XK8 O2 O2 O 0 1 N N N N N N -2.373 -15.226 16.157 -2.704 -0.941 0.132 O2 XK8 26 XK8 O3 O3 O 0 1 N N N N N N -8.607 -15.708 15.651 -5.092 3.865 0.647 O3 XK8 27 XK8 O4 O4 O 0 1 N N N N N N -7.046 -14.580 14.566 -5.443 2.363 2.229 O4 XK8 28 XK8 O5 O5 O 0 1 N N N N N N -2.584 -10.973 20.411 3.146 5.811 -1.145 O5 XK8 29 XK8 H1 H1 H 0 1 N N N N N N -2.224 -14.110 13.633 1.058 -2.394 0.423 H1 XK8 30 XK8 H2 H2 H 0 1 N N N N N N -0.738 -14.232 12.631 1.189 -1.231 -0.918 H2 XK8 31 XK8 H3 H3 H 0 1 N N N N N N -1.295 -16.282 13.997 -0.485 -0.855 1.606 H3 XK8 32 XK8 H4 H4 H 0 1 N N N N N N 0.350 -15.603 14.242 -0.353 0.308 0.265 H4 XK8 33 XK8 H5 H5 H 0 1 N N N N N N -0.613 -16.318 16.356 -1.276 -1.385 -1.294 H5 XK8 34 XK8 H6 H6 H 0 1 N N N N N N -0.418 -14.533 16.326 -1.408 -2.548 0.047 H6 XK8 35 XK8 H7 H7 H 0 1 N N N N N N -4.142 -14.913 21.049 -6.898 -3.043 -2.124 H7 XK8 36 XK8 H8 H8 H 0 1 N N N N N N -5.677 -14.764 19.147 -7.161 -1.188 -0.528 H8 XK8 37 XK8 H9 H9 H 0 1 N N N N N N -4.632 -15.371 15.602 -6.221 0.088 1.263 H9 XK8 38 XK8 H10 H10 H 0 1 N N N N N N -5.274 -13.818 16.236 -4.475 0.041 1.606 H10 XK8 39 XK8 H11 H11 H 0 1 N N N N N N -6.901 -15.146 17.613 -4.051 1.501 -0.353 H11 XK8 40 XK8 H12 H12 H 0 1 N N N N N N -6.332 -16.619 16.757 -5.797 1.548 -0.696 H12 XK8 41 XK8 H13 H13 H 0 1 N N N N N N -0.683 -11.862 16.529 3.815 0.947 -2.112 H13 XK8 42 XK8 H14 H14 H 0 1 N N N N N N -0.864 -10.095 16.794 2.363 0.792 -1.094 H14 XK8 43 XK8 H15 H15 H 0 1 N N N N N N -3.253 -10.234 16.420 3.384 2.192 0.640 H15 XK8 44 XK8 H16 H16 H 0 1 N N N N N N -3.120 -11.972 15.986 4.904 2.275 -0.283 H16 XK8 45 XK8 H17 H17 H 0 1 N N N N N N -3.996 -11.734 18.225 3.714 3.406 -2.141 H17 XK8 46 XK8 H18 H18 H 0 1 N N N N N N -2.360 -12.475 18.271 2.194 3.323 -1.218 H18 XK8 47 XK8 H19 H19 H 0 1 N N N N N N -1.430 -10.248 18.867 3.215 4.684 0.585 H19 XK8 48 XK8 H20 H20 H 0 1 N N N N N N -3.109 -9.616 18.953 4.735 4.767 -0.338 H20 XK8 49 XK8 H21 H21 H 0 1 N N N N N N -0.863 -15.372 18.375 -2.669 -2.918 -1.587 H21 XK8 50 XK8 H22 H22 H 0 1 N N N N N N -1.741 -15.220 20.668 -4.655 -3.907 -2.653 H22 XK8 51 XK8 H23 H23 H 0 1 N N N N N N -0.911 -7.855 11.642 7.688 -1.468 -0.976 H23 XK8 52 XK8 H24 H24 H 0 1 N N N N N N -2.006 -7.592 12.825 7.616 -2.736 0.124 H24 XK8 53 XK8 H25 H25 H 0 1 N N N N N N -0.052 -11.784 10.659 2.371 -2.584 2.376 H25 XK8 54 XK8 H26 H26 H 0 1 N N N N N N 0.717 -12.689 11.779 3.724 -3.559 2.583 H26 XK8 55 XK8 H27 H27 H 0 1 N N N N N N -9.115 -15.467 14.885 -5.204 4.559 1.311 H27 XK8 56 XK8 H28 H28 H 0 1 N N N N N N -2.296 -10.290 21.006 3.345 6.667 -0.741 H28 XK8 57 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal XK8 N3 C2 SING N N 1 XK8 N2 C2 DOUB Y N 2 XK8 N2 C1 SING Y N 3 XK8 C2 C3 SING Y N 4 XK8 N1 C1 SING N N 5 XK8 C1 N4 DOUB Y N 6 XK8 C4 O1 SING N N 7 XK8 C4 C5 SING N N 8 XK8 C3 O1 SING N N 9 XK8 C3 C16 DOUB Y N 10 XK8 N4 C16 SING Y N 11 XK8 C5 C6 SING N N 12 XK8 O4 C15 DOUB N N 13 XK8 C16 C17 SING N N 14 XK8 C15 O3 SING N N 15 XK8 C15 C14 SING N N 16 XK8 C6 O2 SING N N 17 XK8 O2 C7 SING N N 18 XK8 C17 C18 SING N N 19 XK8 C13 C14 SING N N 20 XK8 C13 C12 SING N N 21 XK8 C18 C19 SING N N 22 XK8 C7 C12 DOUB Y N 23 XK8 C7 C8 SING Y N 24 XK8 C12 C11 SING Y N 25 XK8 C19 C20 SING N N 26 XK8 C8 C9 DOUB Y N 27 XK8 C11 C10 DOUB Y N 28 XK8 C20 O5 SING N N 29 XK8 C9 C10 SING Y N 30 XK8 C4 H1 SING N N 31 XK8 C4 H2 SING N N 32 XK8 C5 H3 SING N N 33 XK8 C5 H4 SING N N 34 XK8 C6 H5 SING N N 35 XK8 C6 H6 SING N N 36 XK8 C10 H7 SING N N 37 XK8 C11 H8 SING N N 38 XK8 C13 H9 SING N N 39 XK8 C13 H10 SING N N 40 XK8 C14 H11 SING N N 41 XK8 C14 H12 SING N N 42 XK8 C17 H13 SING N N 43 XK8 C17 H14 SING N N 44 XK8 C18 H15 SING N N 45 XK8 C18 H16 SING N N 46 XK8 C19 H17 SING N N 47 XK8 C19 H18 SING N N 48 XK8 C20 H19 SING N N 49 XK8 C20 H20 SING N N 50 XK8 C8 H21 SING N N 51 XK8 C9 H22 SING N N 52 XK8 N1 H23 SING N N 53 XK8 N1 H24 SING N N 54 XK8 N3 H25 SING N N 55 XK8 N3 H26 SING N N 56 XK8 O3 H27 SING N N 57 XK8 O5 H28 SING N N 58 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor XK8 SMILES ACDLabs 12.01 "Nc1nc(CCCCO)c(OCCCOc2ccccc2CCC(=O)O)c(N)n1" XK8 InChI InChI 1.06 "InChI=1S/C20H28N4O5/c21-19-18(15(7-3-4-11-25)23-20(22)24-19)29-13-5-12-28-16-8-2-1-6-14(16)9-10-17(26)27/h1-2,6,8,25H,3-5,7,9-13H2,(H,26,27)(H4,21,22,23,24)" XK8 InChIKey InChI 1.06 KIVXGXPLHYMNPB-UHFFFAOYSA-N XK8 SMILES_CANONICAL CACTVS 3.385 "Nc1nc(N)c(OCCCOc2ccccc2CCC(O)=O)c(CCCCO)n1" XK8 SMILES CACTVS 3.385 "Nc1nc(N)c(OCCCOc2ccccc2CCC(O)=O)c(CCCCO)n1" XK8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(c(c1)CCC(=O)O)OCCCOc2c(nc(nc2N)N)CCCCO" XK8 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(c(c1)CCC(=O)O)OCCCOc2c(nc(nc2N)N)CCCCO" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier XK8 "SYSTEMATIC NAME" ACDLabs 12.01 "3-[2-(3-{[2,4-diamino-6-(4-hydroxybutyl)pyrimidin-5-yl]oxy}propoxy)phenyl]propanoic acid" XK8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "3-[2-[3-[2,4-bis(azanyl)-6-(4-oxidanylbutyl)pyrimidin-5-yl]oxypropoxy]phenyl]propanoic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XK8 "Create component" 2022-11-23 RCSB XK8 "Initial release" 2023-12-13 RCSB #