data_A1ICD # _chem_comp.id A1ICD _chem_comp.name "N-methyl-N-[(4,4,6,6-tetrahydroxy-4,6-dioxido-1,3,3a,5,6a-tetrahydrothien[3,4-d]imidazol-4-ium-2-yl)methyl]-5-(2,4,4-trihydroxy-2-keto-3,3a,5,6-tetrahydro-1H-thien[3,4-d]imidazol-4-ium-6-yl" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H29 N5 Ni O6 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-05-23 _chem_comp.pdbx_modified_date 2025-01-10 _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 574.275 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1ICD _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 9FFJ _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1ICD C02 C1 C 0 1 N N N N N N 0.628 -13.424 8.179 9.041 1.663 0.603 C02 A1ICD 1 A1ICD C04 C2 C 0 1 N N S N N N 0.265 -11.499 9.392 7.767 1.273 -1.260 C04 A1ICD 2 A1ICD C05 C3 C 0 1 N N R N N N 0.547 -11.231 7.749 9.192 0.757 -1.495 C05 A1ICD 3 A1ICD C06 C4 C 0 1 N N N N N N -0.512 -10.763 7.294 9.232 -0.763 -1.745 C06 A1ICD 4 A1ICD C09 C5 C 0 1 N N S N N N -1.028 -11.012 9.622 6.708 0.154 -1.324 C09 A1ICD 5 A1ICD C10 C6 C 0 1 N N N N N N -1.622 -11.784 10.765 5.601 0.396 -0.297 C10 A1ICD 6 A1ICD C11 C7 C 0 1 N N N N N N -2.424 -10.779 11.720 4.506 -0.659 -0.469 C11 A1ICD 7 A1ICD C12 C8 C 0 1 N N N N N N -2.778 -11.631 13.078 3.398 -0.417 0.558 C12 A1ICD 8 A1ICD C13 C9 C 0 1 N N N N N N -3.855 -10.814 13.960 2.304 -1.472 0.385 C13 A1ICD 9 A1ICD C14 C10 C 0 1 N N N N N N -3.086 -9.475 14.467 1.212 -1.234 1.397 C14 A1ICD 10 A1ICD C16 C11 C 0 1 N N N N N N -2.944 -6.842 14.614 -0.923 -1.815 2.416 C16 A1ICD 11 A1ICD C17 C12 C 0 1 Y N N N N N -3.840 -6.260 15.838 -1.956 -0.891 1.832 C17 A1ICD 12 A1ICD C18 C13 C 0 1 Y N N N N N -4.667 -7.158 16.604 -1.963 0.439 2.146 C18 A1ICD 13 A1ICD C19 C14 C 0 1 Y N N N N N -5.497 -6.623 17.714 -2.923 1.274 1.589 C19 A1ICD 14 A1ICD C26 C15 C 0 1 Y N N N N N -4.699 -4.276 17.326 -3.881 -0.462 0.421 C26 A1ICD 15 A1ICD C27 C16 C 0 1 Y N N N N N -3.819 -4.819 16.148 -2.934 -1.373 0.952 C27 A1ICD 16 A1ICD C28 C17 C 0 1 Y N N N N N -2.967 -3.913 15.358 -2.991 -2.739 0.593 C28 A1ICD 17 A1ICD C29 C18 C 0 1 Y N N N N N -2.944 -2.552 15.647 -3.935 -3.198 -0.257 C29 A1ICD 18 A1ICD C30 C19 C 0 1 Y N N N N N -3.785 -1.993 16.780 -4.899 -2.329 -0.816 C30 A1ICD 19 A1ICD C31 C20 C 0 1 Y N N N N N -4.672 -2.923 17.616 -4.886 -0.951 -0.485 C31 A1ICD 20 A1ICD C33 C21 C 0 1 Y N N N N N -5.413 -1.004 18.952 -6.711 -0.569 -1.832 C33 A1ICD 21 A1ICD C34 C22 C 0 1 Y N N N N N -4.570 -0.059 18.171 -6.784 -1.906 -2.202 C34 A1ICD 22 A1ICD C35 C23 C 0 1 Y N N N N N -3.760 -0.552 17.089 -5.880 -2.801 -1.700 C35 A1ICD 23 A1ICD N03 N1 N 0 1 N N N N N N 0.349 -12.684 9.550 7.808 1.823 0.104 N03 A1ICD 24 A1ICD N08 N2 N 0 1 N N N N N N 0.789 -12.366 7.183 9.895 1.067 -0.241 N08 A1ICD 25 A1ICD N15 N3 N 0 1 N N N N N N -3.698 -8.110 14.135 0.138 -2.047 1.433 N15 A1ICD 26 A1ICD N20 N4 N 1 1 Y N N N N N -5.469 -5.175 18.028 -3.838 0.812 0.754 N20 A1ICD 27 A1ICD N32 N5 N 1 1 Y N N N N N -5.446 -2.414 18.648 -5.781 -0.133 -1.000 N32 A1ICD 28 A1ICD O01 O1 O 0 1 N N N N N N 0.741 -14.655 7.982 9.358 2.028 1.719 O01 A1ICD 29 A1ICD O22 O2 O -1 1 N N N N N N -4.968 -4.384 20.895 -4.179 2.161 -1.804 O22 A1ICD 30 A1ICD O23 O3 O -1 1 N N N N N N -8.123 -3.807 18.223 -6.628 1.456 1.290 O23 A1ICD 31 A1ICD O24 O4 O 0 1 N N N N N N -7.263 -5.992 19.979 -4.907 3.577 0.539 O24 A1ICD 32 A1ICD O25 O5 O 0 1 N N N N N N -7.730 -3.430 21.131 -6.930 2.593 -1.287 O25 A1ICD 33 A1ICD O36 O6 O 0 1 N N N N N N -2.017 -9.549 15.108 1.302 -0.312 2.179 O36 A1ICD 34 A1ICD S07 S1 S 0 1 N N N N N N -1.782 -10.922 8.442 7.699 -1.351 -0.915 S07 A1ICD 35 A1ICD NI21 NI1 NI 0 0 N N N N N N -6.545 -4.104 19.551 -5.404 1.809 -0.257 NI21 A1ICD 36 A1ICD C36 C24 C 0 1 N N N N N N -4.606 -8.051 13.591 0.030 -3.161 0.488 C36 A1ICD 37 A1ICD H1 H1 H 0 1 N N N N N N 1.009 -10.910 9.949 7.529 2.059 -1.977 H1 A1ICD 38 A1ICD H2 H2 H 0 1 N N N N N N 1.397 -10.536 7.678 9.653 1.288 -2.328 H2 A1ICD 39 A1ICD H3 H3 H 0 1 N N N N N N -0.783 -11.306 6.377 9.200 -0.981 -2.812 H3 A1ICD 40 A1ICD H4 H4 H 0 1 N N N N N N -0.366 -9.698 7.060 10.116 -1.207 -1.288 H4 A1ICD 41 A1ICD H5 H5 H 0 1 N N N N N N -0.912 -9.984 9.995 6.292 0.074 -2.328 H5 A1ICD 42 A1ICD H6 H6 H 0 1 N N N N N N -2.310 -12.548 10.374 6.016 0.327 0.709 H6 A1ICD 43 A1ICD H7 H7 H 0 1 N N N N N N -0.818 -12.272 11.336 5.176 1.388 -0.447 H7 A1ICD 44 A1ICD H8 H8 H 0 1 N N N N N N -1.800 -9.907 11.967 4.091 -0.590 -1.475 H8 A1ICD 45 A1ICD H9 H9 H 0 1 N N N N N N -3.348 -10.441 11.229 4.931 -1.652 -0.319 H9 A1ICD 46 A1ICD H10 H10 H 0 1 N N N N N N -3.199 -12.608 12.799 3.814 -0.486 1.563 H10 A1ICD 47 A1ICD H11 H11 H 0 1 N N N N N N -1.861 -11.781 13.666 2.973 0.575 0.407 H11 A1ICD 48 A1ICD H12 H12 H 0 1 N N N N N N -4.728 -10.546 13.347 1.888 -1.404 -0.620 H12 A1ICD 49 A1ICD H13 H13 H 0 1 N N N N N N -4.182 -11.417 14.820 2.728 -2.465 0.536 H13 A1ICD 50 A1ICD H14 H14 H 0 1 N N N N N N -1.934 -7.101 14.963 -0.496 -1.364 3.312 H14 A1ICD 51 A1ICD H15 H15 H 0 1 N N N N N N -2.873 -6.104 13.801 -1.391 -2.765 2.676 H15 A1ICD 52 A1ICD H16 H16 H 0 1 N N N N N N -4.683 -8.213 16.373 -1.226 0.842 2.824 H16 A1ICD 53 A1ICD H17 H17 H 0 1 N N N N N N -6.121 -7.289 18.292 -2.922 2.327 1.844 H17 A1ICD 54 A1ICD H18 H18 H 0 1 N N N N N N -2.361 -4.305 14.555 -2.266 -3.429 1.004 H18 A1ICD 55 A1ICD H19 H19 H 0 1 N N N N N N -2.324 -1.889 15.061 -3.954 -4.249 -0.513 H19 A1ICD 56 A1ICD H20 H20 H 0 1 N N N N N N -6.014 -0.626 19.765 -7.433 0.132 -2.234 H20 A1ICD 57 A1ICD H21 H21 H 0 1 N N N N N N -4.566 0.993 18.415 -7.553 -2.236 -2.885 H21 A1ICD 58 A1ICD H22 H22 H 0 1 N N N N N N -3.144 0.122 16.513 -5.920 -3.840 -1.976 H22 A1ICD 59 A1ICD H23 H23 H 0 1 N N N N N N 0.255 -13.145 10.432 7.062 2.235 0.568 H23 A1ICD 60 A1ICD H24 H24 H 0 1 N N N N N N 1.044 -12.499 6.225 10.827 0.873 -0.055 H24 A1ICD 61 A1ICD H29 H29 H 0 1 N N N N N N -4.961 -9.066 13.357 -0.482 -2.825 -0.414 H29 A1ICD 62 A1ICD H30 H30 H 0 1 N N N N N N -5.362 -7.529 14.196 1.028 -3.515 0.228 H30 A1ICD 63 A1ICD H31 H31 H 0 1 N N N N N N -4.438 -7.497 12.656 -0.536 -3.972 0.946 H31 A1ICD 64 A1ICD H25 H25 H 0 1 N N N N N N -8.051 -6.154 19.474 -4.897 4.305 -0.097 H25 A1ICD 65 A1ICD H26 H26 H 0 1 N N N N N N -7.227 -3.452 21.937 -7.744 2.073 -1.241 H26 A1ICD 66 # 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 A1ICD C02 O01 DOUB N N 1 A1ICD N03 C02 SING N N 2 A1ICD C04 N03 SING N N 3 A1ICD S07 C06 SING N N 4 A1ICD C06 C05 SING N N 5 A1ICD N08 C05 SING N N 6 A1ICD C05 C04 SING N N 7 A1ICD C09 C04 SING N N 8 A1ICD C10 C09 SING N N 9 A1ICD C11 C10 SING N N 10 A1ICD C12 C11 SING N N 11 A1ICD C13 C12 SING N N 12 A1ICD C14 C13 SING N N 13 A1ICD C16 N15 SING N N 14 A1ICD C17 C16 SING N N 15 A1ICD C18 C17 DOUB Y N 16 A1ICD C19 C18 SING Y N 17 A1ICD N20 C19 DOUB Y N 18 A1ICD O22 NI21 SING N N 19 A1ICD O23 NI21 SING N N 20 A1ICD O24 NI21 SING N N 21 A1ICD O25 NI21 SING N N 22 A1ICD NI21 N20 SING N N 23 A1ICD C26 N20 SING Y N 24 A1ICD C27 C26 DOUB Y N 25 A1ICD C28 C27 SING Y N 26 A1ICD C29 C28 DOUB Y N 27 A1ICD C30 C29 SING Y N 28 A1ICD C31 C30 DOUB Y N 29 A1ICD N32 C31 SING Y N 30 A1ICD C33 N32 DOUB Y N 31 A1ICD C34 C33 SING Y N 32 A1ICD C35 C34 DOUB Y N 33 A1ICD N15 C14 SING N N 34 A1ICD O36 C14 DOUB N N 35 A1ICD C02 N08 SING N N 36 A1ICD S07 C09 SING N N 37 A1ICD C17 C27 SING Y N 38 A1ICD NI21 N32 SING N N 39 A1ICD C26 C31 SING Y N 40 A1ICD C30 C35 SING Y N 41 A1ICD C36 N15 SING N N 42 A1ICD C04 H1 SING N N 43 A1ICD C05 H2 SING N N 44 A1ICD C06 H3 SING N N 45 A1ICD C06 H4 SING N N 46 A1ICD C09 H5 SING N N 47 A1ICD C10 H6 SING N N 48 A1ICD C10 H7 SING N N 49 A1ICD C11 H8 SING N N 50 A1ICD C11 H9 SING N N 51 A1ICD C12 H10 SING N N 52 A1ICD C12 H11 SING N N 53 A1ICD C13 H12 SING N N 54 A1ICD C13 H13 SING N N 55 A1ICD C16 H14 SING N N 56 A1ICD C16 H15 SING N N 57 A1ICD C18 H16 SING N N 58 A1ICD C19 H17 SING N N 59 A1ICD C28 H18 SING N N 60 A1ICD C29 H19 SING N N 61 A1ICD C33 H20 SING N N 62 A1ICD C34 H21 SING N N 63 A1ICD C35 H22 SING N N 64 A1ICD N03 H23 SING N N 65 A1ICD N08 H24 SING N N 66 A1ICD C36 H29 SING N N 67 A1ICD C36 H30 SING N N 68 A1ICD C36 H31 SING N N 69 A1ICD O24 H25 SING N N 70 A1ICD O25 H26 SING N N 71 # 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 A1ICD InChI InChI 1.06 "InChI=1S/C24H27N5O2S.Ni.2H2O.2O/c1-29(20(30)7-3-2-6-19-23-18(14-32-19)27-24(31)28-23)13-16-10-12-26-22-17(16)9-8-15-5-4-11-25-21(15)22;;;;;/h4-5,8-12,18-19,23H,2-3,6-7,13-14H2,1H3,(H2,27,28,31);;2*1H2;;/q;+4;;;2*-1/p-2/t18-,19-,23-;;;;;/m0...../s1" A1ICD InChIKey InChI 1.06 FBTOJTGKJUIUQP-ZJHXQHFDSA-L A1ICD SMILES_CANONICAL CACTVS 3.385 "CN(Cc1cc[n+]2c3c1ccc4ccc[n+](c34)[Ni]2(O)(O)([O-])[O-])C(=O)CCCC[C@@H]5SC[C@@H]6NC(=O)N[C@H]56" A1ICD SMILES CACTVS 3.385 "CN(Cc1cc[n+]2c3c1ccc4ccc[n+](c34)[Ni]2(O)(O)([O-])[O-])C(=O)CCCC[CH]5SC[CH]6NC(=O)N[CH]56" A1ICD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN(Cc1cc[n+]2c3c1ccc4c3[n+](ccc4)[Ni]2(O)(O)([O-])[O-])C(=O)CCCC[C@H]5[C@@H]6[C@H](CS5)NC(=O)N6" A1ICD SMILES "OpenEye OEToolkits" 2.0.7 "CN(Cc1cc[n+]2c3c1ccc4c3[n+](ccc4)[Ni]2(O)(O)([O-])[O-])C(=O)CCCCC5C6C(CS5)NC(=O)N6" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1ICD "Create component" 2024-05-23 PDBE A1ICD "Initial release" 2025-01-15 RCSB #