data_YJZ # _chem_comp.id YJZ _chem_comp.name "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-(2-methoxypyridin-4-yl)-1~{H}-indole-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H26 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-19 _chem_comp.pdbx_modified_date 2024-07-05 _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 450.487 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YJZ _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 8PGR _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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 YJZ C01 C1 C 0 1 N N N N N N -20.455 -14.757 4.583 8.198 1.207 -0.027 C01 YJZ 1 YJZ C03 C2 C 0 1 Y N N N N N -20.850 -13.417 6.487 5.887 0.680 -0.189 C03 YJZ 2 YJZ C04 C3 C 0 1 Y N N N N N -21.404 -13.255 7.749 4.653 0.396 0.376 C04 YJZ 3 YJZ C05 C4 C 0 1 Y N N N N N -21.144 -12.082 8.418 3.563 0.157 -0.465 C05 YJZ 4 YJZ C06 C5 C 0 1 Y N N N N N -21.701 -11.884 9.792 2.227 -0.149 0.092 C06 YJZ 5 YJZ C07 C6 C 0 1 Y N N N N N -22.179 -10.716 10.359 1.430 0.694 0.845 C07 YJZ 6 YJZ C08 C7 C 0 1 N N N N N N -22.410 -9.398 9.752 1.772 2.066 1.235 C08 YJZ 7 YJZ C12 C8 C 0 1 Y N N N N N -22.348 -12.233 11.956 0.270 -1.231 0.641 C12 YJZ 8 YJZ C13 C9 C 0 1 Y N N N N N -22.660 -12.899 13.176 -0.650 -2.277 0.676 C13 YJZ 9 YJZ C14 C10 C 0 1 N N S N N N -23.255 -12.099 14.327 -1.955 -2.111 1.412 C14 YJZ 10 YJZ C15 C11 C 0 1 N N N N N N -22.672 -12.466 15.683 -2.591 -3.484 1.638 C15 YJZ 11 YJZ C17 C12 C 0 1 N N N N N N -25.413 -13.448 14.759 -3.469 -0.011 1.059 C17 YJZ 12 YJZ C18 C13 C 0 1 N N N N N N -26.814 -13.150 14.512 -4.312 0.420 -0.146 C18 YJZ 13 YJZ C19 C14 C 0 1 N N N N N N -27.741 -12.747 15.644 -4.102 1.858 -0.620 C19 YJZ 14 YJZ C20 C15 C 0 1 N N N N N N -28.812 -13.716 15.074 -5.615 1.895 -0.901 C20 YJZ 15 YJZ C21 C16 C 0 1 N N N N N N -29.452 -14.697 16.058 -6.279 3.215 -0.503 C21 YJZ 16 YJZ C23 C17 C 0 1 N N N N N N -27.817 -14.211 14.037 -5.763 0.788 0.159 C23 YJZ 17 YJZ C25 C18 C 0 1 N N N N N N -25.502 -11.521 13.476 -3.274 -1.545 -0.631 C25 YJZ 18 YJZ C27 C19 C 0 1 Y N N N N N -22.404 -14.248 13.202 -0.365 -3.462 0.035 C27 YJZ 19 YJZ C28 C20 C 0 1 Y N N N N N -21.841 -14.912 12.101 0.833 -3.628 -0.647 C28 YJZ 20 YJZ C29 C21 C 0 1 Y N N N N N -21.476 -14.261 10.927 1.750 -2.617 -0.695 C29 YJZ 21 YJZ C30 C22 C 0 1 Y N N N N N -21.808 -12.878 10.824 1.482 -1.406 -0.052 C30 YJZ 22 YJZ C31 C23 C 0 1 Y N N N N N -20.288 -11.147 7.824 3.769 0.216 -1.850 C31 YJZ 23 YJZ C32 C24 C 0 1 Y N N N N N -19.790 -11.391 6.567 5.029 0.505 -2.328 C32 YJZ 24 YJZ N11 N1 N 0 1 Y N N N N N -22.515 -10.923 11.625 0.263 0.038 1.171 N11 YJZ 25 YJZ N16 N2 N 0 1 N N N N N N -24.723 -12.264 14.332 -2.861 -1.278 0.617 N16 YJZ 26 YJZ N22 N3 N 0 1 N N N N N N -30.557 -15.390 15.433 -7.688 3.198 -0.917 N22 YJZ 27 YJZ N33 N4 N 0 1 Y N N N N N -20.089 -12.509 5.899 6.035 0.725 -1.503 N33 YJZ 28 YJZ O02 O1 O 0 1 N N N N N N -21.094 -14.590 5.831 6.953 0.920 0.615 O02 YJZ 29 YJZ O09 O2 O 0 1 N N N N N N -22.372 -8.329 10.450 0.909 2.793 1.974 O09 YJZ 30 YJZ O10 O3 O 0 1 N N N N N N -22.831 -9.370 8.550 2.834 2.549 0.891 O10 YJZ 31 YJZ O24 O4 O 0 1 N N N N N N -26.791 -12.016 13.544 -4.108 -0.616 -1.136 O24 YJZ 32 YJZ O26 O5 O 0 1 N N N N N N -25.198 -10.596 12.782 -2.928 -2.532 -1.249 O26 YJZ 33 YJZ H012 H1 H 0 0 N N N N N N -20.729 -15.734 4.158 8.965 1.378 0.729 H012 YJZ 34 YJZ H011 H2 H 0 0 N N N N N N -20.773 -13.957 3.898 8.487 0.363 -0.653 H011 YJZ 35 YJZ H013 H3 H 0 0 N N N N N N -19.365 -14.710 4.720 8.091 2.098 -0.645 H013 YJZ 36 YJZ H041 H4 H 0 0 N N N N N N -22.019 -14.025 8.191 4.536 0.360 1.449 H041 YJZ 37 YJZ H141 H5 H 0 0 N N N N N N -23.030 -11.038 14.145 -1.771 -1.633 2.374 H141 YJZ 38 YJZ H151 H6 H 0 0 N N N N N N -23.145 -11.853 16.464 -2.774 -3.963 0.676 H151 YJZ 39 YJZ H153 H7 H 0 0 N N N N N N -22.862 -13.530 15.888 -1.916 -4.104 2.229 H153 YJZ 40 YJZ H152 H8 H 0 0 N N N N N N -21.588 -12.281 15.678 -3.534 -3.365 2.170 H152 YJZ 41 YJZ H172 H9 H 0 0 N N N N N N -25.090 -14.321 14.173 -2.699 0.730 1.274 H172 YJZ 42 YJZ H171 H10 H 0 0 N N N N N N -25.237 -13.639 15.828 -4.101 -0.171 1.932 H171 YJZ 43 YJZ H191 H11 H 0 0 N N N N N N -27.375 -13.015 16.646 -3.786 2.538 0.171 H191 YJZ 44 YJZ H192 H12 H 0 0 N N N N N N -28.036 -11.687 15.632 -3.487 1.937 -1.517 H192 YJZ 45 YJZ H201 H13 H 0 0 N N N N N N -29.600 -13.130 14.578 -5.880 1.575 -1.908 H201 YJZ 46 YJZ H211 H14 H 0 0 N N N N N N -28.699 -15.431 16.379 -6.219 3.341 0.578 H211 YJZ 47 YJZ H212 H15 H 0 0 N N N N N N -29.821 -14.143 16.934 -5.766 4.042 -0.995 H212 YJZ 48 YJZ H231 H16 H 0 0 N N N N N N -28.149 -14.083 12.996 -6.478 0.012 -0.117 H231 YJZ 49 YJZ H232 H17 H 0 0 N N N N N N -27.483 -15.248 14.191 -5.916 1.166 1.169 H232 YJZ 50 YJZ H271 H18 H 0 0 N N N N N N -22.642 -14.812 14.092 -1.080 -4.270 0.064 H271 YJZ 51 YJZ H281 H19 H 0 0 N N N N N N -21.684 -15.978 12.168 1.041 -4.564 -1.145 H281 YJZ 52 YJZ H291 H20 H 0 0 N N N N N N -20.964 -14.780 10.130 2.680 -2.753 -1.227 H291 YJZ 53 YJZ H311 H21 H 0 0 N N N N N N -20.021 -10.242 8.349 2.952 0.037 -2.533 H311 YJZ 54 YJZ H321 H22 H 0 0 N N N N N N -19.141 -10.661 6.107 5.195 0.552 -3.395 H321 YJZ 55 YJZ H111 H23 H 0 0 N N N N N N -22.845 -10.215 12.250 -0.460 0.417 1.695 H111 YJZ 56 YJZ H1 H24 H 0 1 N N N N N N -30.965 -16.027 16.087 -8.149 4.060 -0.666 H1 YJZ 57 YJZ H222 H25 H 0 0 N N N N N N -31.245 -14.725 15.142 -7.773 3.018 -1.906 H222 YJZ 58 YJZ H2 H27 H 0 1 N N N N N N -22.690 -7.600 9.931 1.178 3.692 2.206 H2 YJZ 59 # 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 YJZ C01 O02 SING N N 1 YJZ O02 C03 SING N N 2 YJZ N33 C03 DOUB Y N 3 YJZ N33 C32 SING Y N 4 YJZ C03 C04 SING Y N 5 YJZ C32 C31 DOUB Y N 6 YJZ C04 C05 DOUB Y N 7 YJZ C31 C05 SING Y N 8 YJZ C05 C06 SING N N 9 YJZ O10 C08 DOUB N N 10 YJZ C08 C07 SING N N 11 YJZ C08 O09 SING N N 12 YJZ C06 C07 DOUB Y N 13 YJZ C06 C30 SING Y N 14 YJZ C07 N11 SING Y N 15 YJZ C30 C29 DOUB Y N 16 YJZ C30 C12 SING Y N 17 YJZ C29 C28 SING Y N 18 YJZ N11 C12 SING Y N 19 YJZ C12 C13 DOUB Y N 20 YJZ C28 C27 DOUB Y N 21 YJZ O26 C25 DOUB N N 22 YJZ C13 C27 SING Y N 23 YJZ C13 C14 SING N N 24 YJZ C25 O24 SING N N 25 YJZ C25 N16 SING N N 26 YJZ O24 C18 SING N N 27 YJZ C23 C18 SING N N 28 YJZ C23 C20 SING N N 29 YJZ C14 N16 SING N N 30 YJZ C14 C15 SING N N 31 YJZ N16 C17 SING N N 32 YJZ C18 C17 SING N N 33 YJZ C18 C19 SING N N 34 YJZ C20 C19 SING N N 35 YJZ C20 C21 SING N N 36 YJZ N22 C21 SING N N 37 YJZ C01 H012 SING N N 38 YJZ C01 H011 SING N N 39 YJZ C01 H013 SING N N 40 YJZ C04 H041 SING N N 41 YJZ C14 H141 SING N N 42 YJZ C15 H151 SING N N 43 YJZ C15 H153 SING N N 44 YJZ C15 H152 SING N N 45 YJZ C17 H172 SING N N 46 YJZ C17 H171 SING N N 47 YJZ C19 H191 SING N N 48 YJZ C19 H192 SING N N 49 YJZ C20 H201 SING N N 50 YJZ C21 H211 SING N N 51 YJZ C21 H212 SING N N 52 YJZ C23 H231 SING N N 53 YJZ C23 H232 SING N N 54 YJZ C27 H271 SING N N 55 YJZ C28 H281 SING N N 56 YJZ C29 H291 SING N N 57 YJZ C31 H311 SING N N 58 YJZ C32 H321 SING N N 59 YJZ N11 H111 SING N N 60 YJZ N22 H1 SING N N 61 YJZ N22 H222 SING N N 62 YJZ O09 H2 SING N N 63 # 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 YJZ InChI InChI 1.06 "InChI=1S/C24H26N4O5/c1-13(28-12-24(33-23(28)31)9-14(10-24)11-25)16-4-3-5-17-19(21(22(29)30)27-20(16)17)15-6-7-26-18(8-15)32-2/h3-8,13-14,27H,9-12,25H2,1-2H3,(H,29,30)/t13-,14-,24-/m0/s1" YJZ InChIKey InChI 1.06 HDJIGCDFVMJXHP-XACMVJRISA-N YJZ SMILES_CANONICAL CACTVS 3.385 "COc1cc(ccn1)c2c([nH]c3c(cccc23)[C@H](C)N4C[C@@]5(C[C@H](CN)C5)OC4=O)C(O)=O" YJZ SMILES CACTVS 3.385 "COc1cc(ccn1)c2c([nH]c3c(cccc23)[CH](C)N4C[C]5(C[CH](CN)C5)OC4=O)C(O)=O" YJZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](c1cccc2c1[nH]c(c2c3ccnc(c3)OC)C(=O)O)N4CC5(CC(C5)CN)OC4=O" YJZ SMILES "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccnc(c3)OC)C(=O)O)N4CC5(CC(C5)CN)OC4=O" # _pdbx_chem_comp_identifier.comp_id YJZ _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-(2-methoxypyridin-4-yl)-1~{H}-indole-2-carboxylic 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 YJZ "Create component" 2023-06-19 PDBE YJZ "Initial release" 2024-07-10 RCSB #