data_TT9 # _chem_comp.id TT9 _chem_comp.name "[(2~{S},3~{S},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-2-(hydroxymethyl)-3,4-bis(oxidanyl)thiolan-2-yl] phosphono hydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H15 N3 O11 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-04-29 _chem_comp.pdbx_modified_date 2024-04-19 _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 435.241 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TT9 _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 8J5G _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # 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 TT9 N1 N1 N 0 1 N N N N N N 16.524 13.970 2.770 -3.536 -0.192 -0.284 N1 TT9 1 TT9 N3 N2 N 0 1 N N N N N N 19.692 11.857 0.966 -6.227 -3.253 -0.109 N3 TT9 2 TT9 C4 C1 C 0 1 N N R N N N 15.481 14.660 3.514 -2.546 0.887 -0.320 C4 TT9 3 TT9 C5 C2 C 0 1 N N N N N N 17.590 13.401 3.484 -3.315 -1.278 0.480 C5 TT9 4 TT9 C6 C3 C 0 1 N N N N N N 18.624 12.566 1.590 -5.322 -2.219 -0.171 C6 TT9 5 TT9 C7 C4 C 0 1 N N N N N N 17.460 13.171 0.769 -5.588 -1.091 -0.974 C7 TT9 6 TT9 C8 C5 C 0 1 N N N N N N 16.480 13.818 1.362 -4.678 -0.089 -1.020 C8 TT9 7 TT9 C1 C6 C 0 1 N N S N N N 13.123 15.765 3.111 0.090 1.533 -0.057 C1 TT9 8 TT9 C2 C7 C 0 1 N N S N N N 14.134 16.630 3.824 -0.819 2.065 1.064 C2 TT9 9 TT9 C3 C8 C 0 1 N N R N N N 15.445 16.146 3.236 -2.169 1.348 1.112 C3 TT9 10 TT9 C9 C9 C 0 1 N N N N N N 11.782 15.684 3.813 0.475 2.664 -1.012 C9 TT9 11 TT9 N2 N3 N 0 1 N N N N N N 18.650 12.692 2.855 -4.199 -2.273 0.532 N2 TT9 12 TT9 O1 O1 O 0 1 N N N N N N 9.414 18.919 0.604 5.682 -1.498 1.578 O1 TT9 13 TT9 O10 O2 O 0 1 N N N N N N 17.627 13.528 4.833 -2.289 -1.351 1.136 O10 TT9 14 TT9 O11 O3 O 0 1 N N N N N N 11.173 16.943 3.815 1.172 3.681 -0.290 O11 TT9 15 TT9 O2 O4 O 0 1 N N N N N N 11.251 20.269 0.264 5.435 -1.151 -0.910 O2 TT9 16 TT9 O3 O5 O 0 1 N N N N N N 11.078 19.027 2.233 4.050 -2.979 0.144 O3 TT9 17 TT9 O4 O6 O 0 1 N N N N N N 11.616 17.725 0.004 3.505 -0.439 0.552 O4 TT9 18 TT9 O5 O7 O 0 1 N N N N N N 11.306 15.221 0.757 3.113 1.365 -1.320 O5 TT9 19 TT9 O6 O8 O 0 1 N N N N N N 13.177 15.838 -0.424 1.795 -0.788 -1.272 O6 TT9 20 TT9 O7 O9 O 0 1 N N N N N N 13.127 16.534 1.942 1.262 0.932 0.497 O7 TT9 21 TT9 O8 O10 O 0 1 N N N N N N 14.095 16.515 5.219 -1.043 3.461 0.854 O8 TT9 22 TT9 O9 O11 O 0 1 N N N N N N 16.539 16.787 3.823 -3.168 2.241 1.608 O9 TT9 23 TT9 P1 P1 P 0 1 N N N N N N 10.863 18.969 0.790 4.685 -1.509 0.314 P1 TT9 24 TT9 P2 P2 P 0 1 N N N N N N 12.255 16.316 0.595 2.405 0.245 -0.405 P2 TT9 25 TT9 S1 S1 S 0 1 N N N N N N 13.818 14.067 3.019 -0.921 0.277 -0.930 S1 TT9 26 TT9 H1 H1 H 0 1 N N N N N N 20.431 11.477 1.521 -6.044 -4.025 0.449 H1 TT9 27 TT9 H2 H2 H 0 1 N N N N N N 19.702 11.740 -0.027 -7.048 -3.211 -0.625 H2 TT9 28 TT9 H3 H3 H 0 1 N N N N N N 15.574 14.475 4.594 -2.903 1.724 -0.921 H3 TT9 29 TT9 H4 H4 H 0 1 N N N N N N 17.452 13.061 -0.305 -6.500 -1.030 -1.549 H4 TT9 30 TT9 H5 H5 H 0 1 N N N N N N 15.660 14.224 0.788 -4.856 0.782 -1.633 H5 TT9 31 TT9 H6 H6 H 0 1 N N N N N N 13.978 17.677 3.523 -0.315 1.930 2.021 H6 TT9 32 TT9 H7 H7 H 0 1 N N N N N N 15.434 16.310 2.148 -2.096 0.481 1.768 H7 TT9 33 TT9 H8 H8 H 0 1 N N N N N N 11.136 14.967 3.286 1.118 2.272 -1.800 H8 TT9 34 TT9 H9 H9 H 0 1 N N N N N N 11.932 15.349 4.850 -0.427 3.087 -1.456 H9 TT9 35 TT9 H10 H10 H 0 1 N N N N N N 9.118 19.726 0.200 6.419 -2.119 1.503 H10 TT9 36 TT9 H11 H11 H 0 1 N N N N N N 10.333 16.888 4.256 1.447 4.431 -0.835 H11 TT9 37 TT9 H12 H12 H 0 1 N N N N N N 11.412 19.884 2.470 3.543 -3.279 0.910 H12 TT9 38 TT9 H13 H13 H 0 1 N N N N N N 11.538 14.511 0.171 3.534 2.075 -0.817 H13 TT9 39 TT9 H14 H14 H 0 1 N N N N N N 14.753 17.083 5.603 -1.609 3.873 1.521 H14 TT9 40 TT9 H15 H15 H 0 1 N N N N N N 16.498 17.718 3.637 -4.048 1.847 1.679 H15 TT9 41 # 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 TT9 O6 P2 DOUB N N 1 TT9 O4 P2 SING N N 2 TT9 O4 P1 SING N N 3 TT9 O2 P1 DOUB N N 4 TT9 P2 O5 SING N N 5 TT9 P2 O7 SING N N 6 TT9 O1 P1 SING N N 7 TT9 C7 C8 DOUB N N 8 TT9 C7 C6 SING N N 9 TT9 P1 O3 SING N N 10 TT9 N3 C6 SING N N 11 TT9 C8 N1 SING N N 12 TT9 C6 N2 DOUB N N 13 TT9 O7 C1 SING N N 14 TT9 N1 C5 SING N N 15 TT9 N1 C4 SING N N 16 TT9 N2 C5 SING N N 17 TT9 S1 C1 SING N N 18 TT9 S1 C4 SING N N 19 TT9 C1 C9 SING N N 20 TT9 C1 C2 SING N N 21 TT9 C3 C4 SING N N 22 TT9 C3 O9 SING N N 23 TT9 C3 C2 SING N N 24 TT9 C5 O10 DOUB N N 25 TT9 C9 O11 SING N N 26 TT9 C2 O8 SING N N 27 TT9 N3 H1 SING N N 28 TT9 N3 H2 SING N N 29 TT9 C4 H3 SING N N 30 TT9 C7 H4 SING N N 31 TT9 C8 H5 SING N N 32 TT9 C2 H6 SING N N 33 TT9 C3 H7 SING N N 34 TT9 C9 H8 SING N N 35 TT9 C9 H9 SING N N 36 TT9 O1 H10 SING N N 37 TT9 O11 H11 SING N N 38 TT9 O3 H12 SING N N 39 TT9 O5 H13 SING N N 40 TT9 O8 H14 SING N N 41 TT9 O9 H15 SING N N 42 # 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 TT9 InChI InChI 1.06 "InChI=1S/C9H15N3O11P2S/c10-4-1-2-12(8(16)11-4)7-5(14)6(15)9(3-13,26-7)22-25(20,21)23-24(17,18)19/h1-2,5-7,13-15H,3H2,(H,20,21)(H2,10,11,16)(H2,17,18,19)/t5-,6+,7-,9+/m1/s1" TT9 InChIKey InChI 1.06 KEAXZHZTGMHPPH-AYHNYZOXSA-N TT9 SMILES_CANONICAL CACTVS 3.385 "NC1=NC(=O)N(C=C1)[C@@H]2S[C@](CO)(O[P](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]2O" TT9 SMILES CACTVS 3.385 "NC1=NC(=O)N(C=C1)[CH]2S[C](CO)(O[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]2O" TT9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@@H]([C@@](S2)(CO)OP(=O)(O)OP(=O)(O)O)O)O" TT9 SMILES "OpenEye OEToolkits" 2.0.7 "C1=CN(C(=O)N=C1N)C2C(C(C(S2)(CO)OP(=O)(O)OP(=O)(O)O)O)O" # _pdbx_chem_comp_identifier.comp_id TT9 _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 "[(2~{S},3~{S},4~{R},5~{R})-5-(4-azanyl-2-oxidanylidene-pyrimidin-1-yl)-2-(hydroxymethyl)-3,4-bis(oxidanyl)thiolan-2-yl] phosphono hydrogen phosphate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site TT9 "Create component" 2023-04-29 PDBJ TT9 "Initial release" 2024-04-24 RCSB #