data_X9D # _chem_comp.id X9D _chem_comp.name "4-[(E)-({1-carboxy-2-[(3R)-3-hydroxy-2-oxo-2,3-dihydro-1H-indol-3-yl]ethan-1-id-1-yl}iminio)methyl]-2-methyl-5-[(phosphonooxy)methyl]pyridin-1-ium-3-olate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H20 N3 O9 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-12-07 _chem_comp.pdbx_modified_date 2021-01-29 _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 465.351 _chem_comp.one_letter_code ? _chem_comp.three_letter_code X9D _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 6XT0 _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.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 X9D C05 C1 C 0 1 N N N 82.243 14.338 13.803 3.635 0.287 -0.130 C05 X9D 1 X9D C06 C2 C 0 1 Y N N 83.258 14.240 12.694 2.961 -1.061 -0.110 C06 X9D 2 X9D C07 C3 C 0 1 Y N N 83.105 14.968 11.518 1.550 -1.154 -0.121 C07 X9D 3 X9D C08 C4 C 0 1 N N N 81.990 15.968 11.559 0.752 0.010 -0.146 C08 X9D 4 X9D C10 C5 C -1 1 N N S 80.046 16.572 9.967 -1.318 0.991 -0.184 C10 X9D 5 X9D C11 C6 C 0 1 N N N 79.290 17.033 11.194 -2.711 0.987 -0.760 C11 X9D 6 X9D C12 C7 C 0 1 N N R 78.153 16.016 11.265 -3.717 0.654 0.343 C12 X9D 7 X9D C14 C8 C 0 1 Y N N 77.305 16.244 12.469 -5.130 0.723 -0.190 C14 X9D 8 X9D C15 C9 C 0 1 Y N N 76.001 16.534 12.079 -5.666 -0.550 -0.045 C15 X9D 9 X9D C17 C10 C 0 1 N N N 77.131 16.218 10.127 -3.559 -0.785 0.788 C17 X9D 10 X9D C19 C11 C 0 1 Y N N 75.016 16.790 13.021 -6.976 -0.781 -0.460 C19 X9D 11 X9D C20 C12 C 0 1 Y N N 75.369 16.749 14.368 -7.721 0.244 -1.005 C20 X9D 12 X9D C21 C13 C 0 1 Y N N 76.683 16.450 14.760 -7.176 1.507 -1.145 C21 X9D 13 X9D C22 C14 C 0 1 Y N N 77.666 16.190 13.802 -5.875 1.744 -0.736 C22 X9D 14 X9D C23 C15 C 0 1 N N N 80.425 17.949 9.096 -0.831 2.130 0.457 C23 X9D 15 X9D C26 C16 C 0 1 Y N N 84.081 14.849 10.526 0.954 -2.440 -0.108 C26 X9D 16 X9D C28 C17 C 0 1 Y N N 85.158 13.999 10.728 1.752 -3.539 -0.085 C28 X9D 17 X9D C29 C18 C 0 1 N N N 86.206 13.847 9.670 1.131 -4.912 -0.071 C29 X9D 18 X9D C31 C19 C 0 1 Y N N 84.359 13.404 12.842 3.700 -2.194 -0.087 C31 X9D 19 X9D N09 N1 N 1 1 N N N 81.625 16.031 10.102 -0.554 -0.090 -0.288 N09 X9D 20 X9D N16 N2 N 0 1 N N N 75.807 16.542 10.678 -4.725 -1.407 0.528 N16 X9D 21 X9D N30 N3 N 1 1 Y N N 85.269 13.302 11.862 3.104 -3.411 -0.075 N30 X9D 22 X9D O01 O1 O 0 1 N N N 81.379 11.530 13.830 5.951 2.142 -1.527 O01 X9D 23 X9D O03 O2 O 0 1 N N N 79.081 12.276 13.497 5.789 2.255 0.990 O03 X9D 24 X9D O04 O3 O 0 1 N N N 80.962 13.947 13.364 5.052 0.111 -0.120 O04 X9D 25 X9D O13 O4 O 0 1 N N N 78.804 14.775 11.275 -3.556 1.541 1.451 O13 X9D 26 X9D O18 O5 O 0 1 N N N 77.368 16.134 8.952 -2.571 -1.285 1.282 O18 X9D 27 X9D O24 O6 O 0 1 N N N 80.128 17.815 7.889 -0.118 2.019 1.440 O24 X9D 28 X9D O25 O7 O 0 1 N N N 80.866 19.047 9.502 -1.150 3.359 -0.011 O25 X9D 29 X9D O27 O8 O -1 1 N N N 83.979 15.543 9.371 -0.399 -2.572 -0.117 O27 X9D 30 X9D O32 O9 O 0 1 N N N 80.300 12.863 15.514 7.591 0.782 0.013 O32 X9D 31 X9D P02 P1 P 0 1 N N N 80.380 12.618 14.061 6.089 1.342 -0.137 P02 X9D 32 X9D H051 H1 H 0 0 N N N 82.553 13.683 14.631 3.342 0.826 -1.031 H051 X9D 33 X9D H052 H2 H 0 0 N N N 82.198 15.379 14.156 3.333 0.857 0.749 H052 X9D 34 X9D H081 H4 H 0 0 N N N 81.567 16.496 12.401 1.211 0.982 -0.047 H081 X9D 35 X9D H111 H6 H 0 0 N N N 79.922 16.990 12.093 -2.936 1.971 -1.172 H111 X9D 36 X9D H112 H7 H 0 0 N N N 78.905 18.055 11.066 -2.776 0.239 -1.550 H112 X9D 37 X9D H191 H8 H 0 0 N N N 74.004 17.015 12.719 -7.409 -1.765 -0.354 H191 X9D 38 X9D H201 H9 H 0 0 N N N 74.621 16.950 15.121 -8.736 0.058 -1.326 H201 X9D 39 X9D H211 H10 H 0 0 N N N 76.936 16.421 15.810 -7.763 2.306 -1.573 H211 X9D 40 X9D H221 H11 H 0 0 N N N 78.678 15.954 14.094 -5.446 2.730 -0.843 H221 X9D 41 X9D H292 H12 H 0 0 N N N 87.002 14.588 9.833 0.991 -5.258 -1.095 H292 X9D 42 X9D H293 H13 H 0 0 N N N 86.632 12.834 9.719 1.788 -5.602 0.459 H293 X9D 43 X9D H291 H14 H 0 0 N N N 85.753 14.007 8.680 0.166 -4.869 0.434 H291 X9D 44 X9D H311 H15 H 0 0 N N N 84.482 12.834 13.751 4.778 -2.128 -0.083 H311 X9D 45 X9D H091 H17 H 0 0 N N N 82.226 15.790 9.340 -0.957 -0.954 -0.469 H091 X9D 46 X9D H161 H18 H 0 0 N N N 74.962 16.726 10.176 -4.893 -2.343 0.718 H161 X9D 47 X9D H4 H19 H 0 1 N N N 80.968 10.818 13.354 6.134 1.605 -2.310 H4 X9D 48 X9D H131 H20 H 0 0 N N N 79.410 14.741 12.005 -4.169 1.375 2.180 H131 X9D 49 X9D H5 H21 H 0 1 N N N 80.912 19.658 8.776 -0.767 4.085 0.498 H5 X9D 50 X9D H7 H23 H 0 1 N N N 79.403 12.749 15.806 8.270 1.470 0.011 H7 X9D 51 X9D H301 H24 H 0 0 N N N 86.050 12.689 11.983 3.655 -4.209 -0.058 H301 X9D 52 # # 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 X9D O24 C23 DOUB N N 1 X9D O18 C17 DOUB N N 2 X9D C23 O25 SING N N 3 X9D C23 C10 SING N N 4 X9D O27 C26 SING N N 5 X9D C29 C28 SING N N 6 X9D C10 N09 SING N N 7 X9D C10 C11 SING N N 8 X9D N09 C08 DOUB N N 9 X9D C17 N16 SING N N 10 X9D C17 C12 SING N N 11 X9D C26 C28 DOUB Y N 12 X9D C26 C07 SING Y N 13 X9D N16 C15 SING N N 14 X9D C28 N30 SING Y N 15 X9D C11 C12 SING N N 16 X9D C12 O13 SING N N 17 X9D C12 C14 SING N N 18 X9D C07 C08 SING N N 19 X9D C07 C06 DOUB Y N 20 X9D N30 C31 DOUB Y N 21 X9D C15 C14 DOUB Y N 22 X9D C15 C19 SING Y N 23 X9D C14 C22 SING Y N 24 X9D C06 C31 SING Y N 25 X9D C06 C05 SING N N 26 X9D C19 C20 DOUB Y N 27 X9D O04 C05 SING N N 28 X9D O04 P02 SING N N 29 X9D O03 P02 DOUB N N 30 X9D C22 C21 DOUB Y N 31 X9D O01 P02 SING N N 32 X9D P02 O32 SING N N 33 X9D C20 C21 SING Y N 34 X9D C05 H051 SING N N 35 X9D C05 H052 SING N N 36 X9D C08 H081 SING N N 37 X9D C11 H111 SING N N 38 X9D C11 H112 SING N N 39 X9D C19 H191 SING N N 40 X9D C20 H201 SING N N 41 X9D C21 H211 SING N N 42 X9D C22 H221 SING N N 43 X9D C29 H292 SING N N 44 X9D C29 H293 SING N N 45 X9D C29 H291 SING N N 46 X9D C31 H311 SING N N 47 X9D N09 H091 SING N N 48 X9D N16 H161 SING N N 49 X9D O01 H4 SING N N 50 X9D O13 H131 SING N N 51 X9D O25 H5 SING N N 52 X9D O32 H7 SING N N 53 X9D N30 H301 SING N N 54 # # 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 X9D SMILES ACDLabs 12.01 "C(c1c[nH+]c(c(c1[C@H]=[NH+][C-](CC3(O)c2ccccc2NC3=O)C(O)=O)[O-])C)OP(O)(=O)O" X9D InChI InChI 1.03 "InChI=1S/C19H20N3O9P/c1-10-16(23)12(11(7-20-10)9-31-32(28,29)30)8-21-15(17(24)25)6-19(27)13-4-2-3-5-14(13)22-18(19)26/h2-5,7-8,21,23,27H,6,9H2,1H3,(H,22,26)(H,24,25)(H2,28,29,30)/b21-8+/t19-/m1/s1" X9D InChIKey InChI 1.03 KVWUPOTUZSGNFK-JWWNMXMMSA-N X9D SMILES_CANONICAL CACTVS 3.385 "Cc1[nH+]cc(CO[P](O)(O)=O)c(C=[NH+][C-](C[C@]2(O)C(=O)Nc3ccccc23)C(O)=O)c1[O-]" X9D SMILES CACTVS 3.385 "Cc1[nH+]cc(CO[P](O)(O)=O)c(C=[NH+][C-](C[C]2(O)C(=O)Nc3ccccc23)C(O)=O)c1[O-]" X9D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c(c[nH+]1)COP(=O)(O)O)/C=[NH+]/[C@@-](C[C@]2(c3ccccc3NC2=O)O)C(=O)O)[O-]" X9D SMILES "OpenEye OEToolkits" 2.0.7 "Cc1c(c(c(c[nH+]1)COP(=O)(O)O)C=[NH+][C-](CC2(c3ccccc3NC2=O)O)C(=O)O)[O-]" # # 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 X9D "SYSTEMATIC NAME" ACDLabs 12.01 "4-[(E)-({1-carboxy-2-[(3R)-3-hydroxy-2-oxo-2,3-dihydro-1H-indol-3-yl]ethan-1-id-1-yl}iminio)methyl]-2-methyl-5-[(phosphonooxy)methyl]pyridin-1-ium-3-olate" X9D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-methyl-4-[(~{E})-[(2~{S})-1-oxidanyl-1-oxidanylidene-3-[(3~{R})-3-oxidanyl-2-oxidanylidene-1~{H}-indol-3-yl]propan-2-yl]azaniumylidenemethyl]-5-(phosphonooxymethyl)pyridin-1-ium-3-olate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site X9D "Create component" 2020-12-07 RCSB X9D "Initial release" 2021-02-03 RCSB ##