data_A1H2A # _chem_comp.id A1H2A _chem_comp.name "(2~{S})-2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-5-[2-[oxidanyl(phosphonooxy)phosphoryl]oxyethyl]-1,3-thiazol-2-yl]-2-oxidanyl-butanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H25 N4 O10 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "Ketobutyryl-thiamine diphosphate" _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2024-01-16 _chem_comp.pdbx_modified_date 2024-06-07 _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 527.403 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1H2A _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 8RPH _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_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 A1H2A O2 O1 O 0 1 N N N N N N 45.364 4.407 69.211 -4.326 -0.544 1.541 O2 A1H2A 1 A1H2A C9 C1 C 0 1 N N N N N N 47.802 7.085 68.245 -5.400 -3.228 2.022 C9 A1H2A 2 A1H2A C8 C2 C 0 1 N N N N N N 47.072 6.009 69.030 -4.007 -2.939 1.460 C8 A1H2A 3 A1H2A C7 C3 C 0 1 N N N N N N 41.940 10.631 69.003 1.891 -0.498 -0.263 C7 A1H2A 4 A1H2A C6 C4 C 0 1 N N N N N N 42.898 10.081 67.983 1.087 -1.469 -1.130 C6 A1H2A 5 A1H2A N3 N1 N 1 1 Y N N N N N 43.337 6.410 68.801 -2.473 -0.570 -0.943 N3 A1H2A 6 A1H2A S1 S1 S 0 1 Y N N N N N 44.925 8.151 67.965 -1.262 -2.240 0.417 S1 A1H2A 7 A1H2A C5 C5 C 0 1 Y N N N N N 43.319 8.658 68.245 -0.380 -1.333 -0.809 C5 A1H2A 8 A1H2A C4 C6 C 0 1 Y N N N N N 42.589 7.604 68.688 -1.240 -0.502 -1.404 C4 A1H2A 9 A1H2A C3 C7 C 0 1 N N N N N N 45.962 4.989 66.940 -5.108 -1.719 -0.397 C3 A1H2A 10 A1H2A C1 C8 C 0 1 N N S N N N 45.748 5.502 68.400 -4.039 -1.634 0.662 C1 A1H2A 11 A1H2A C2 C9 C 0 1 Y N N N N N 44.665 6.542 68.436 -2.700 -1.412 0.007 C2 A1H2A 12 A1H2A "C2'" C10 C 0 1 Y N N N N N 42.302 4.644 73.425 -4.032 3.633 0.973 "C2'" A1H2A 13 A1H2A "C4'" C11 C 0 1 Y N N N N N 43.681 5.084 71.631 -2.976 2.650 -0.820 "C4'" A1H2A 14 A1H2A "C5'" C12 C 0 1 Y N N N N N 42.593 4.992 70.736 -3.716 1.486 -0.599 "C5'" A1H2A 15 A1H2A "C6'" C13 C 0 1 Y N N N N N 41.371 4.707 71.320 -4.619 1.471 0.446 "C6'" A1H2A 16 A1H2A "C7'" C14 C 0 1 N N N N N N 42.709 5.169 69.261 -3.539 0.279 -1.483 "C7'" A1H2A 17 A1H2A CM2 C15 C 0 1 N N N N N N 42.143 4.456 74.897 -4.215 4.837 1.861 CM2 A1H2A 18 A1H2A CM4 C16 C 0 1 N N N N N N 41.139 7.619 69.041 -0.835 0.437 -2.511 CM4 A1H2A 19 A1H2A "N1'" N2 N 0 1 Y N N N N N 41.204 4.534 72.644 -4.749 2.552 1.203 "N1'" A1H2A 20 A1H2A "N3'" N3 N 0 1 Y N N N N N 43.512 4.908 72.962 -3.163 3.693 -0.016 "N3'" A1H2A 21 A1H2A "N4'" N4 N 0 1 N N N N N N 44.928 5.350 71.225 -2.062 2.716 -1.858 "N4'" A1H2A 22 A1H2A O10 O2 O 0 1 N N N N N N 47.072 5.178 66.388 -5.045 -2.674 -1.339 O10 A1H2A 23 A1H2A O1A O3 O 0 1 N N N N N N 43.818 13.413 70.867 4.313 0.078 1.627 O1A A1H2A 24 A1H2A O1B O4 O 0 1 N N N N N N 42.492 15.145 67.235 7.344 -0.410 1.714 O1B A1H2A 25 A1H2A O2A O5 O 0 1 N N N N N N 41.520 13.655 69.786 4.232 1.799 -0.218 O2A A1H2A 26 A1H2A O2B O6 O 0 1 N N N N N N 44.836 15.316 68.154 8.337 -1.155 -0.485 O2B A1H2A 27 A1H2A O3A O7 O 0 1 N N N N N N 43.514 13.159 68.365 5.872 -0.252 -0.331 O3A A1H2A 28 A1H2A O3B O8 O 0 1 N N N N N N 44.369 13.874 66.137 7.898 1.386 0.029 O3B A1H2A 29 A1H2A O7 O9 O 0 1 N N N N N N 42.680 11.422 69.958 3.281 -0.627 -0.567 O7 A1H2A 30 A1H2A O9 O10 O 0 1 N N N N N N 44.989 4.419 66.389 -6.022 -0.928 -0.399 O9 A1H2A 31 A1H2A PA P1 P 0 1 N N N N N N 42.853 13.001 69.816 4.422 0.246 0.160 PA A1H2A 32 A1H2A PB P2 P 0 1 N N N N N N 43.825 14.447 67.429 7.362 -0.114 0.263 PB A1H2A 33 A1H2A HO2 H1 H 0 1 N N N N N N 44.984 3.727 68.667 -3.678 -0.430 2.249 HO2 A1H2A 34 A1H2A H92 H2 H 0 1 N N N N N N 48.721 7.369 68.779 -5.706 -2.410 2.674 H92 A1H2A 35 A1H2A H91 H3 H 0 1 N N N N N N 48.061 6.699 67.248 -6.111 -3.322 1.201 H91 A1H2A 36 A1H2A H9 H4 H 0 1 N N N N N N 47.152 7.966 68.139 -5.377 -4.157 2.591 H9 A1H2A 37 A1H2A H8 H5 H 0 1 N N N N N N 46.839 6.415 70.025 -3.296 -2.844 2.282 H8 A1H2A 38 A1H2A H81 H6 H 0 1 N N N N N N 47.749 5.148 69.134 -3.701 -3.756 0.808 H81 A1H2A 39 A1H2A H72 H7 H 0 1 N N N N N N 41.190 11.261 68.503 1.568 0.523 -0.466 H72 A1H2A 40 A1H2A H71 H8 H 0 1 N N N N N N 41.436 9.802 69.521 1.726 -0.728 0.790 H71 A1H2A 41 A1H2A H61 H9 H 0 1 N N N N N N 43.798 10.713 67.977 1.252 -1.238 -2.182 H61 A1H2A 42 A1H2A H62 H10 H 0 1 N N N N N N 42.414 10.123 66.996 1.410 -2.490 -0.926 H62 A1H2A 43 A1H2A "H6'" H11 H 0 1 N N N N N N 40.506 4.619 70.679 -5.208 0.589 0.646 "H6'" A1H2A 44 A1H2A "H7'1" H12 H 0 0 N N N N N N 43.301 4.329 68.869 -3.272 0.601 -2.489 "H7'1" A1H2A 45 A1H2A "H7'2" H13 H 0 0 N N N N N N 41.694 5.131 68.839 -4.470 -0.286 -1.518 "H7'2" A1H2A 46 A1H2A HM21 H14 H 0 0 N N N N N N 41.089 4.244 75.128 -4.996 5.476 1.449 HM21 A1H2A 47 A1H2A HM23 H15 H 0 0 N N N N N N 42.768 3.613 75.229 -4.502 4.510 2.860 HM23 A1H2A 48 A1H2A HM22 H16 H 0 0 N N N N N N 42.456 5.372 75.419 -3.280 5.394 1.915 HM22 A1H2A 49 A1H2A HM42 H17 H 0 0 N N N N N N 41.023 7.867 70.106 -0.582 1.409 -2.089 HM42 A1H2A 50 A1H2A HM41 H18 H 0 0 N N N N N N 40.621 8.374 68.431 0.032 0.031 -3.033 HM41 A1H2A 51 A1H2A HM43 H19 H 0 0 N N N N N N 40.704 6.628 68.846 -1.661 0.549 -3.214 HM43 A1H2A 52 A1H2A HN42 H20 H 0 0 N N N N N N 45.539 5.372 72.016 -2.197 2.184 -2.658 HN42 A1H2A 53 A1H2A HN41 H21 H 0 0 N N N N N N 45.230 4.639 70.590 -1.286 3.294 -1.785 HN41 A1H2A 54 A1H2A H1 H22 H 0 1 N N N N N N 47.052 4.826 65.506 -5.753 -2.689 -1.997 H1 A1H2A 55 A1H2A H2 H23 H 0 1 N N N N N N 41.462 14.290 70.490 4.291 1.984 -1.165 H2 A1H2A 56 A1H2A H3 H24 H 0 1 N N N N N N 44.443 16.156 68.359 9.253 -1.127 -0.176 H3 A1H2A 57 A1H2A H4 H25 H 0 1 N N N N N N 43.764 14.060 65.428 7.936 1.649 -0.901 H4 A1H2A 58 # 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 A1H2A "N1'" "C2'" DOUB Y N 1 A1H2A "N1'" "C6'" SING Y N 2 A1H2A "C2'" CM2 SING N N 3 A1H2A "C2'" "N3'" SING Y N 4 A1H2A "N3'" "C4'" DOUB Y N 5 A1H2A "C4'" "N4'" SING N N 6 A1H2A "C4'" "C5'" SING Y N 7 A1H2A "C5'" "C6'" DOUB Y N 8 A1H2A "C5'" "C7'" SING N N 9 A1H2A "C7'" N3 SING N N 10 A1H2A N3 C2 DOUB Y N 11 A1H2A N3 C4 SING Y N 12 A1H2A C2 S1 SING Y N 13 A1H2A C2 C1 SING N N 14 A1H2A S1 C5 SING Y N 15 A1H2A C5 C4 DOUB Y N 16 A1H2A C5 C6 SING N N 17 A1H2A C4 CM4 SING N N 18 A1H2A C6 C7 SING N N 19 A1H2A C7 O7 SING N N 20 A1H2A O7 PA SING N N 21 A1H2A PA O1A DOUB N N 22 A1H2A PA O2A SING N N 23 A1H2A PA O3A SING N N 24 A1H2A O3A PB SING N N 25 A1H2A PB O1B DOUB N N 26 A1H2A PB O2B SING N N 27 A1H2A PB O3B SING N N 28 A1H2A C1 O2 SING N N 29 A1H2A C1 C3 SING N N 30 A1H2A C1 C8 SING N N 31 A1H2A C3 O9 DOUB N N 32 A1H2A C3 O10 SING N N 33 A1H2A C8 C9 SING N N 34 A1H2A O2 HO2 SING N N 35 A1H2A C9 H92 SING N N 36 A1H2A C9 H91 SING N N 37 A1H2A C9 H9 SING N N 38 A1H2A C8 H8 SING N N 39 A1H2A C8 H81 SING N N 40 A1H2A C7 H72 SING N N 41 A1H2A C7 H71 SING N N 42 A1H2A C6 H61 SING N N 43 A1H2A C6 H62 SING N N 44 A1H2A "C6'" "H6'" SING N N 45 A1H2A "C7'" "H7'1" SING N N 46 A1H2A "C7'" "H7'2" SING N N 47 A1H2A CM2 HM21 SING N N 48 A1H2A CM2 HM23 SING N N 49 A1H2A CM2 HM22 SING N N 50 A1H2A CM4 HM42 SING N N 51 A1H2A CM4 HM41 SING N N 52 A1H2A CM4 HM43 SING N N 53 A1H2A "N4'" HN42 SING N N 54 A1H2A "N4'" HN41 SING N N 55 A1H2A O10 H1 SING N N 56 A1H2A O2A H2 SING N N 57 A1H2A O2B H3 SING N N 58 A1H2A O3B H4 SING N N 59 # 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 A1H2A InChI InChI 1.06 "InChI=1S/C16H24N4O10P2S/c1-4-16(23,15(21)22)14-20(8-11-7-18-10(3)19-13(11)17)9(2)12(33-14)5-6-29-32(27,28)30-31(24,25)26/h7,23H,4-6,8H2,1-3H3,(H5-,17,18,19,21,22,24,25,26,27,28)/p+1/t16-/m1/s1" A1H2A InChIKey InChI 1.06 FMOBPODOIDIUAY-MRXNPFEDSA-O A1H2A SMILES_CANONICAL CACTVS 3.385 "CC[C@](O)(C(O)=O)c1sc(CCO[P](O)(=O)O[P](O)(O)=O)c(C)[n+]1Cc2cnc(C)nc2N" A1H2A SMILES CACTVS 3.385 "CC[C](O)(C(O)=O)c1sc(CCO[P](O)(=O)O[P](O)(O)=O)c(C)[n+]1Cc2cnc(C)nc2N" A1H2A SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC[C@@](c1[n+](c(c(s1)CCOP(=O)(O)OP(=O)(O)O)C)Cc2cnc(nc2N)C)(C(=O)O)O" A1H2A SMILES "OpenEye OEToolkits" 2.0.7 "CCC(c1[n+](c(c(s1)CCOP(=O)(O)OP(=O)(O)O)C)Cc2cnc(nc2N)C)(C(=O)O)O" # _pdbx_chem_comp_identifier.comp_id A1H2A _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})-2-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-5-[2-[oxidanyl(phosphonooxy)phosphoryl]oxyethyl]-1,3-thiazol-3-ium-2-yl]-2-oxidanyl-butanoic acid" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1H2A _pdbx_chem_comp_synonyms.name "Ketobutyryl-thiamine diphosphate" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1H2A "Create component" 2024-01-16 PDBE A1H2A "Initial release" 2024-06-12 RCSB #