data_TDL # _chem_comp.id TDL _chem_comp.name "3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-2-(1-CARBOXY-1-HYDROXYETHYL)-5-(2-{[HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-IUM" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H23 N4 O10 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "2-LACTYLTHIAMIN DIPHOSPHATE" _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2005-12-01 _chem_comp.pdbx_modified_date 2021-03-01 _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 513.376 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TDL _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 2EZ8 _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.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 TDL O1B O1B O 0 1 N N N 83.082 59.127 0.917 -7.658 -1.051 1.385 O1B TDL 1 TDL PB PB P 0 1 N N N 84.265 60.053 1.026 -7.608 -0.721 -0.057 PB TDL 2 TDL O2B O2B O 0 1 N N N 85.126 59.830 2.246 -8.187 -1.957 -0.911 O2B TDL 3 TDL O3B O3B O 0 1 N N N 85.013 60.260 -0.269 -8.500 0.590 -0.339 O3B TDL 4 TDL O3A O3A O 0 1 N N N 83.639 61.517 1.430 -6.084 -0.436 -0.491 O3A TDL 5 TDL PA PA P 0 1 N N R 83.520 62.877 0.554 -4.848 0.328 0.202 PA TDL 6 TDL O1A O1A O 0 1 N N N 84.738 63.087 -0.282 -4.757 -0.070 1.625 O1A TDL 7 TDL O2A O2A O 0 1 N N N 83.153 63.999 1.505 -5.078 1.919 0.104 O2A TDL 8 TDL O7 O7 O 0 1 N N N 82.261 62.581 -0.370 -3.482 -0.064 -0.554 O7 TDL 9 TDL C7 C7 C 0 1 N N N 80.960 62.607 0.218 -2.195 0.370 -0.110 C7 TDL 10 TDL C6 C6 C 0 1 N N N 80.075 62.005 -0.863 -1.120 -0.179 -1.050 C6 TDL 11 TDL C5 C5 C 0 1 Y N N 78.573 62.109 -0.725 0.238 0.278 -0.583 C5 TDL 12 TDL S1 S1 S 0 1 Y N N 77.801 61.124 0.482 1.058 1.759 -1.072 S1 TDL 13 TDL C4 C4 C 0 1 Y N N 77.606 62.843 -1.447 1.030 -0.365 0.280 C4 TDL 14 TDL CM4 CM4 C 0 1 N N N 78.035 63.793 -2.552 0.648 -1.677 0.916 CM4 TDL 15 TDL N3 N3 N 1 1 Y N N 76.304 62.646 -1.050 2.172 0.243 0.530 N3 TDL 16 TDL C2 C2 C 0 1 Y N N 76.224 61.728 -0.006 2.387 1.363 -0.072 C2 TDL 17 TDL CLA CLA C 0 1 N N S 74.900 61.167 0.531 3.628 2.203 0.085 CLA TDL 18 TDL OL1 OL1 O 0 1 N N N 73.885 62.144 0.712 3.884 2.420 1.474 OL1 TDL 19 TDL CLB CLB C 0 1 N N N 75.028 60.362 1.841 3.424 3.550 -0.612 CLB TDL 20 TDL CLC CLC C 0 1 N N N 74.357 60.183 -0.580 4.801 1.488 -0.536 CLC TDL 21 TDL OL2 OL2 O 0 1 N N N 74.349 58.913 -0.415 6.039 1.687 -0.056 OL2 TDL 22 TDL OL3 OL3 O 0 1 N N N 73.887 60.597 -1.705 4.627 0.737 -1.466 OL3 TDL 23 TDL "C7'" C7* C 0 1 N N N 75.185 63.405 -1.689 3.155 -0.328 1.455 "C7'" TDL 24 TDL "C5'" C5* C 0 1 Y N N 75.232 64.880 -1.178 4.194 -1.092 0.675 "C5'" TDL 25 TDL "C6'" C6* C 0 1 Y N N 75.473 65.928 -2.101 3.887 -1.658 -0.547 "C6'" TDL 26 TDL "N1'" N1* N 0 1 Y N N 75.531 67.226 -1.719 4.826 -2.323 -1.205 "N1'" TDL 27 TDL "C2'" C2* C 0 1 Y N N 75.371 67.559 -0.417 6.041 -2.450 -0.711 "C2'" TDL 28 TDL CM2 CM2 C 0 1 N N N 75.446 68.995 0.049 7.075 -3.215 -1.497 CM2 TDL 29 TDL "N3'" N3* N 0 1 Y N N 75.142 66.608 0.503 6.378 -1.926 0.450 "N3'" TDL 30 TDL "C4'" C4* C 0 1 Y N N 75.068 65.282 0.170 5.492 -1.240 1.167 "C4'" TDL 31 TDL "N4'" N4* N 0 1 N N N 74.816 64.429 1.209 5.851 -0.686 2.385 "N4'" TDL 32 TDL H2B H2B H 0 1 N N N 86.038 59.783 1.986 -9.103 -2.185 -0.701 H2B TDL 33 TDL H3B H3B H 0 1 N N N 84.395 60.303 -0.989 -8.514 0.865 -1.266 H3B TDL 34 TDL H2A H2A H 0 1 N N N 83.076 63.655 2.387 -5.147 2.251 -0.801 H2A TDL 35 TDL H71 1H7 H 0 1 N N N 80.645 63.618 0.515 -2.158 1.459 -0.113 H71 TDL 36 TDL H72 2H7 H 0 1 N N N 80.923 62.017 1.146 -2.016 0.002 0.900 H72 TDL 37 TDL H61 1H6 H 0 1 N N N 80.276 60.925 -0.805 -1.157 -1.269 -1.048 H61 TDL 38 TDL H62 2H6 H 0 1 N N N 80.337 62.518 -1.800 -1.299 0.188 -2.061 H62 TDL 39 TDL HM41 1HM4 H 0 0 N N N 77.277 63.794 -3.349 0.995 -2.498 0.289 HM41 TDL 40 TDL HM42 2HM4 H 0 0 N N N 79.000 63.464 -2.964 1.109 -1.751 1.901 HM42 TDL 41 TDL HM43 3HM4 H 0 0 N N N 78.139 64.809 -2.143 -0.436 -1.729 1.017 HM43 TDL 42 TDL HL1 HL1 H 0 1 N N N 73.816 62.362 1.634 4.399 1.717 1.894 HL1 TDL 43 TDL HLB1 1HLB H 0 0 N N N 74.163 60.574 2.487 2.576 4.067 -0.163 HLB1 TDL 44 TDL HLB2 2HLB H 0 0 N N N 75.954 60.652 2.360 4.322 4.157 -0.498 HLB2 TDL 45 TDL HLB3 3HLB H 0 0 N N N 75.058 59.287 1.610 3.230 3.385 -1.672 HLB3 TDL 46 TDL HL2 HL2 H 0 1 N N N 73.982 58.495 -1.186 6.760 1.212 -0.492 HL2 TDL 47 TDL "H7'1" 1H7* H 0 0 N N N 74.220 62.946 -1.426 3.637 0.474 2.013 "H7'1" TDL 48 TDL "H7'2" 2H7* H 0 0 N N N 75.299 63.386 -2.783 2.653 -1.003 2.148 "H7'2" TDL 49 TDL "H6'" H6* H 0 1 N N N 75.615 65.684 -3.143 2.895 -1.561 -0.961 "H6'" TDL 50 TDL HM21 1HM2 H 0 0 N N N 74.567 69.545 -0.317 7.607 -2.533 -2.159 HM21 TDL 51 TDL HM22 2HM2 H 0 0 N N N 76.361 69.461 -0.345 7.782 -3.680 -0.810 HM22 TDL 52 TDL HM23 3HM2 H 0 0 N N N 75.464 69.024 1.148 6.583 -3.987 -2.089 HM23 TDL 53 TDL "H4'1" 1H4* H 0 0 N N N 75.557 64.490 1.878 5.167 -0.359 2.989 "H4'1" TDL 54 TDL "H4'2" 2H4* H 0 0 N N N 74.755 63.492 0.864 6.787 -0.625 2.633 "H4'2" TDL 55 # # 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 TDL O1B PB DOUB N N 1 TDL PB O2B SING N N 2 TDL PB O3B SING N N 3 TDL PB O3A SING N N 4 TDL O2B H2B SING N N 5 TDL O3B H3B SING N N 6 TDL O3A PA SING N N 7 TDL PA O1A DOUB N N 8 TDL PA O2A SING N N 9 TDL PA O7 SING N N 10 TDL O2A H2A SING N N 11 TDL O7 C7 SING N N 12 TDL C7 C6 SING N N 13 TDL C7 H71 SING N N 14 TDL C7 H72 SING N N 15 TDL C6 C5 SING N N 16 TDL C6 H61 SING N N 17 TDL C6 H62 SING N N 18 TDL C5 S1 SING Y N 19 TDL C5 C4 DOUB Y N 20 TDL S1 C2 SING Y N 21 TDL C4 CM4 SING N N 22 TDL C4 N3 SING Y N 23 TDL CM4 HM41 SING N N 24 TDL CM4 HM42 SING N N 25 TDL CM4 HM43 SING N N 26 TDL N3 C2 DOUB Y N 27 TDL N3 "C7'" SING N N 28 TDL C2 CLA SING N N 29 TDL CLA OL1 SING N N 30 TDL CLA CLB SING N N 31 TDL CLA CLC SING N N 32 TDL OL1 HL1 SING N N 33 TDL CLB HLB1 SING N N 34 TDL CLB HLB2 SING N N 35 TDL CLB HLB3 SING N N 36 TDL CLC OL2 SING N N 37 TDL CLC OL3 DOUB N N 38 TDL OL2 HL2 SING N N 39 TDL "C7'" "C5'" SING N N 40 TDL "C7'" "H7'1" SING N N 41 TDL "C7'" "H7'2" SING N N 42 TDL "C5'" "C6'" SING Y N 43 TDL "C5'" "C4'" DOUB Y N 44 TDL "C6'" "N1'" DOUB Y N 45 TDL "C6'" "H6'" SING N N 46 TDL "N1'" "C2'" SING Y N 47 TDL "C2'" CM2 SING N N 48 TDL "C2'" "N3'" DOUB Y N 49 TDL CM2 HM21 SING N N 50 TDL CM2 HM22 SING N N 51 TDL CM2 HM23 SING N N 52 TDL "N3'" "C4'" SING Y N 53 TDL "C4'" "N4'" SING N N 54 TDL "N4'" "H4'1" SING N N 55 TDL "N4'" "H4'2" SING N N 56 # # 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 TDL SMILES ACDLabs 10.04 "O=P(O)(O)OP(=O)(O)OCCc1sc([n+](c1C)Cc2cnc(nc2N)C)C(O)(C(=O)O)C" TDL InChI InChI 1.03 "InChI=1S/C15H22N4O10P2S/c1-8-11(4-5-28-31(26,27)29-30(23,24)25)32-13(15(3,22)14(20)21)19(8)7-10-6-17-9(2)18-12(10)16/h6,22H,4-5,7H2,1-3H3,(H5-,16,17,18,20,21,23,24,25,26,27)/p+1/t15-/m1/s1" TDL InChIKey InChI 1.03 TVDSMGSBVYONNB-OAHLLOKOSA-O TDL SMILES_CANONICAL CACTVS 3.385 "Cc1ncc(C[n+]2c(C)c(CCO[P](O)(=O)O[P](O)(O)=O)sc2[C@@](C)(O)C(O)=O)c(N)n1" TDL SMILES CACTVS 3.385 "Cc1ncc(C[n+]2c(C)c(CCO[P](O)(=O)O[P](O)(O)=O)sc2[C](C)(O)C(O)=O)c(N)n1" TDL SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "Cc1c(sc([n+]1Cc2cnc(nc2N)C)[C@](C)(C(=O)O)O)CCO[P@@](=O)(O)OP(=O)(O)O" TDL SMILES "OpenEye OEToolkits" 1.7.5 "Cc1c(sc([n+]1Cc2cnc(nc2N)C)C(C)(C(=O)O)O)CCOP(=O)(O)OP(=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 TDL "SYSTEMATIC NAME" ACDLabs 10.04 "3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-2-[(1S)-1-carboxy-1-hydroxyethyl]-5-(2-{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}ethyl)-4-methyl-1,3-thiazol-3-ium" TDL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S)-2-[3-[(4-amino-2-methyl-pyrimidin-5-yl)methyl]-5-[2-(hydroxy-phosphonooxy-phosphoryl)oxyethyl]-4-methyl-1,3-thiazol-3-ium-2-yl]-2-hydroxy-propanoic 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 TDL "Create component" 2005-12-01 PDBJ TDL "Modify descriptor" 2011-06-04 RCSB TDL "Modify descriptor" 2012-01-05 RCSB TDL "Modify coordinates" 2012-01-05 RCSB TDL "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id TDL _pdbx_chem_comp_synonyms.name "2-LACTYLTHIAMIN DIPHOSPHATE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##