data_TD8 # _chem_comp.id TD8 _chem_comp.name "(5R)-5-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-4-methyl-5-(2-{[(phosphonatooxy)phosphinato]oxy}ethyl)-1,3-thiazol-3-ium-2-yl}-5-hydroxypentanoate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H27 N4 O10 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2013-02-22 _chem_comp.pdbx_modified_date 2013-11-08 _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 541.430 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TD8 _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 3ZHU _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 TD8 S1 S1 S 0 1 Y N N 11.994 46.489 -70.419 -1.158 1.846 -0.289 S1 TD8 1 TD8 C2 C2 C 0 1 Y N N 11.125 45.471 -71.526 -2.386 0.717 0.085 C2 TD8 2 TD8 N3 N3 N 1 1 Y N N 10.360 44.546 -70.871 -1.954 -0.143 0.945 N3 TD8 3 TD8 C4 C4 C 0 1 Y N N 10.455 44.618 -69.497 -0.710 -0.004 1.359 C4 TD8 4 TD8 C5 C5 C 0 1 Y N N 11.337 45.728 -69.025 -0.058 1.029 0.818 C5 TD8 5 TD8 C8 C8 C 0 1 N N R 10.926 46.153 -72.847 -3.773 0.724 -0.505 C8 TD8 6 TD8 C9 C9 C 0 1 N N N 12.207 46.315 -73.628 -4.592 1.848 0.132 C9 TD8 7 TD8 O9 O9 O 0 1 N N N 9.841 45.844 -73.567 -3.690 0.936 -1.916 O9 TD8 8 TD8 PA PA P 0 1 N N N 15.445 46.161 -66.114 4.907 0.525 -0.441 PA TD8 9 TD8 PB PB P 0 1 N N N 15.733 48.976 -66.982 7.824 0.634 0.072 PB TD8 10 TD8 "N1'" "N1'" N 0 1 Y N N 10.643 39.916 -71.267 -1.538 -3.557 -1.168 "N1'" TD8 11 TD8 C10 C10 C 0 1 N N N 12.514 47.779 -73.848 -6.035 1.778 -0.373 C10 TD8 12 TD8 O11 O11 O 0 1 N N N 13.702 47.214 -76.562 -9.180 3.727 0.194 O11 TD8 13 TD8 C12 C12 C 0 1 N N N 12.033 48.297 -75.193 -6.854 2.902 0.264 C12 TD8 14 TD8 O12 O12 O 0 1 N N N 11.615 47.329 -77.303 -8.599 1.972 -1.018 O12 TD8 15 TD8 C14 C14 C 0 1 N N N 12.493 47.548 -76.430 -8.274 2.833 -0.234 C14 TD8 16 TD8 O1A O1A O 0 1 N N N 15.566 46.705 -64.700 4.889 -0.955 -0.421 O1A TD8 17 TD8 O1B O1B O 0 1 N N N 15.550 49.264 -65.517 8.083 -0.746 0.861 O1B TD8 18 TD8 "C2'" "C2'" C 0 1 Y N N 11.741 39.830 -72.042 -2.279 -4.623 -0.947 "C2'" TD8 19 TD8 C2A C2A C 0 1 N N N 12.510 38.553 -72.155 -2.082 -5.843 -1.810 C2A TD8 20 TD8 O2A O2A O 0 1 N N N 16.201 44.872 -66.471 4.809 1.043 -1.962 O2A TD8 21 TD8 O2B O2B O 0 1 N N N 14.554 49.369 -67.825 8.153 0.453 -1.359 O2B TD8 22 TD8 "N3'" "N3'" N 0 1 Y N N 12.155 40.913 -72.728 -3.188 -4.653 0.007 "N3'" TD8 23 TD8 C35 C35 C 0 1 N N N 9.576 43.518 -71.611 -2.808 -1.225 1.439 C35 TD8 24 TD8 O3A O3A O 0 1 N N N 15.800 47.343 -67.184 6.277 1.054 0.219 O3A TD8 25 TD8 O3B O3B O 0 1 N N N 17.096 49.475 -67.453 8.755 1.791 0.695 O3B TD8 26 TD8 "C4'" "C4'" C 0 1 Y N N 11.485 42.089 -72.649 -3.387 -3.595 0.787 "C4'" TD8 27 TD8 "N4'" "N4'" N 0 1 N N N 11.945 43.071 -73.434 -4.343 -3.630 1.789 "N4'" TD8 28 TD8 C4A C4A C 0 1 N N N 9.713 43.742 -68.513 -0.076 -0.935 2.361 C4A TD8 29 TD8 "C5'" "C5'" C 0 1 Y N N 10.371 42.221 -71.816 -2.618 -2.448 0.580 "C5'" TD8 30 TD8 C5A C5A C 0 1 N N N 11.792 46.244 -67.674 1.368 1.426 1.105 C5A TD8 31 TD8 C5B C5B C 0 1 N N N 13.314 46.063 -67.609 2.302 0.712 0.127 C5B TD8 32 TD8 O5G O5G O 0 1 N N N 13.860 45.861 -66.294 3.654 1.088 0.399 O5G TD8 33 TD8 "C6'" "C6'" C 0 1 Y N N 9.975 41.073 -71.130 -1.678 -2.463 -0.431 "C6'" TD8 34 TD8 H8 H8 H 0 1 N N N 10.728 47.189 -72.533 -4.256 -0.234 -0.309 H8 TD8 35 TD8 H9 H9 H 0 1 N N N 13.033 45.853 -73.068 -4.581 1.736 1.217 H9 TD8 36 TD8 H9A H9A H 0 1 N N N 12.101 45.817 -74.603 -4.159 2.811 -0.138 H9A TD8 37 TD8 HO9 HO9 H 0 1 N N N 9.842 46.346 -74.374 -3.270 1.771 -2.164 HO9 TD8 38 TD8 H10 H10 H 0 1 N N N 12.025 48.362 -73.054 -6.045 1.890 -1.457 H10 TD8 39 TD8 H10A H10A H 0 0 N N N 13.603 47.920 -73.788 -6.468 0.815 -0.103 H10A TD8 40 TD8 H12 H12 H 0 1 N N N 10.933 48.274 -75.182 -6.843 2.790 1.348 H12 TD8 41 TD8 H12A H12A H 0 0 N N N 12.377 49.337 -75.289 -6.421 3.865 -0.006 H12A TD8 42 TD8 H2A H2A H 0 1 N N N 12.033 37.781 -71.533 -1.331 -6.490 -1.358 H2A TD8 43 TD8 H2AA H2AA H 0 0 N N N 12.520 38.223 -73.204 -3.025 -6.384 -1.894 H2AA TD8 44 TD8 H2AB H2AB H 0 0 N N N 13.542 38.715 -71.811 -1.749 -5.537 -2.802 H2AB TD8 45 TD8 H35 H35 H 0 1 N N N 8.664 43.288 -71.040 -2.538 -1.459 2.469 H35 TD8 46 TD8 H35A H35A H 0 0 N N N 9.300 43.924 -72.595 -3.851 -0.911 1.399 H35A TD8 47 TD8 "HN4'" "HN4'" H 0 0 N N N 12.732 42.741 -73.956 -4.926 -4.400 1.877 "HN4'" TD8 48 TD8 HN4A HN4A H 0 0 N N N 11.224 43.359 -74.064 -4.429 -2.885 2.404 HN4A TD8 49 TD8 H4A H4A H 0 1 N N N 10.328 42.863 -68.267 0.395 -1.766 1.836 H4A TD8 50 TD8 H4AA H4AA H 0 0 N N N 9.508 44.314 -67.596 0.676 -0.394 2.934 H4AA TD8 51 TD8 H4AB H4AB H 0 0 N N N 8.764 43.412 -68.960 -0.842 -1.318 3.036 H4AB TD8 52 TD8 H5A H5A H 0 1 N N N 11.534 47.308 -67.571 1.475 2.504 0.989 H5A TD8 53 TD8 H5AA H5AA H 0 0 N N N 11.309 45.670 -66.869 1.625 1.142 2.126 H5AA TD8 54 TD8 H5B H5B H 0 1 N N N 13.577 45.189 -68.223 2.195 -0.367 0.243 H5B TD8 55 TD8 H5BA H5BA H 0 0 N N N 13.780 46.964 -68.034 2.045 0.995 -0.894 H5BA TD8 56 TD8 "H6'" "H6'" H 0 1 N N N 9.116 41.115 -70.477 -1.065 -1.594 -0.621 "H6'" TD8 57 TD8 HO11 HO11 H 0 0 N N N 13.823 46.787 -77.402 -10.078 3.642 -0.154 HO11 TD8 58 TD8 HO1B HO1B H 0 0 N N N 14.696 49.656 -65.375 7.888 -0.700 1.807 HO1B TD8 59 TD8 HO2A HO2A H 0 0 N N N 16.678 44.563 -65.710 4.816 2.006 -2.051 HO2A TD8 60 TD8 HO3B HO3B H 0 0 N N N 16.990 49.984 -68.248 9.703 1.605 0.641 HO3B TD8 61 # 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 TD8 S1 C2 SING Y N 1 TD8 S1 C5 SING Y N 2 TD8 C2 N3 DOUB Y N 3 TD8 C2 C8 SING N N 4 TD8 N3 C4 SING Y N 5 TD8 N3 C35 SING N N 6 TD8 C4 C5 DOUB Y N 7 TD8 C4 C4A SING N N 8 TD8 C5 C5A SING N N 9 TD8 C8 C9 SING N N 10 TD8 C8 O9 SING N N 11 TD8 C9 C10 SING N N 12 TD8 PA O1A DOUB N N 13 TD8 PA O2A SING N N 14 TD8 PA O3A SING N N 15 TD8 PA O5G SING N N 16 TD8 PB O1B SING N N 17 TD8 PB O2B DOUB N N 18 TD8 PB O3A SING N N 19 TD8 PB O3B SING N N 20 TD8 "N1'" "C2'" DOUB Y N 21 TD8 "N1'" "C6'" SING Y N 22 TD8 C10 C12 SING N N 23 TD8 O11 C14 SING N N 24 TD8 C12 C14 SING N N 25 TD8 O12 C14 DOUB N N 26 TD8 "C2'" C2A SING N N 27 TD8 "C2'" "N3'" SING Y N 28 TD8 "N3'" "C4'" DOUB Y N 29 TD8 C35 "C5'" SING N N 30 TD8 "C4'" "N4'" SING N N 31 TD8 "C4'" "C5'" SING Y N 32 TD8 "C5'" "C6'" DOUB Y N 33 TD8 C5A C5B SING N N 34 TD8 C5B O5G SING N N 35 TD8 C8 H8 SING N N 36 TD8 C9 H9 SING N N 37 TD8 C9 H9A SING N N 38 TD8 O9 HO9 SING N N 39 TD8 C10 H10 SING N N 40 TD8 C10 H10A SING N N 41 TD8 C12 H12 SING N N 42 TD8 C12 H12A SING N N 43 TD8 C2A H2A SING N N 44 TD8 C2A H2AA SING N N 45 TD8 C2A H2AB SING N N 46 TD8 C35 H35 SING N N 47 TD8 C35 H35A SING N N 48 TD8 "N4'" "HN4'" SING N N 49 TD8 "N4'" HN4A SING N N 50 TD8 C4A H4A SING N N 51 TD8 C4A H4AA SING N N 52 TD8 C4A H4AB SING N N 53 TD8 C5A H5A SING N N 54 TD8 C5A H5AA SING N N 55 TD8 C5B H5B SING N N 56 TD8 C5B H5BA SING N N 57 TD8 "C6'" "H6'" SING N N 58 TD8 O11 HO11 SING N N 59 TD8 O1B HO1B SING N N 60 TD8 O2A HO2A SING N N 61 TD8 O3B HO3B SING N N 62 # 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 TD8 SMILES ACDLabs 12.01 "[O-]C(=O)CCCC(O)c1sc(c([n+]1Cc2cnc(nc2N)C)C)CCOP([O-])(=O)OP([O-])([O-])=O" TD8 InChI InChI 1.03 "InChI=1S/C17H26N4O10P2S/c1-10-14(6-7-30-33(28,29)31-32(25,26)27)34-17(13(22)4-3-5-15(23)24)21(10)9-12-8-19-11(2)20-16(12)18/h8,13,22H,3-7,9H2,1-2H3,(H5-,18,19,20,23,24,25,26,27,28,29)/p-3/t13-/m1/s1" TD8 InChIKey InChI 1.03 WMOBQHPEAJZBCW-CYBMUJFWSA-K TD8 SMILES_CANONICAL CACTVS 3.370 "Cc1ncc(C[n+]2c(C)c(CCO[P](O)(=O)O[P](O)(O)=O)sc2[C@H](O)CCCC(O)=O)c(N)n1" TD8 SMILES CACTVS 3.370 "Cc1ncc(C[n+]2c(C)c(CCO[P](O)(=O)O[P](O)(O)=O)sc2[CH](O)CCCC(O)=O)c(N)n1" TD8 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "Cc1c(sc([n+]1Cc2cnc(nc2N)C)[C@@H](CCCC(=O)O)O)CCOP(=O)(O)OP(=O)(O)O" TD8 SMILES "OpenEye OEToolkits" 1.7.6 "Cc1c(sc([n+]1Cc2cnc(nc2N)C)C(CCCC(=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 TD8 "SYSTEMATIC NAME" ACDLabs 12.01 "(5R)-5-{3-[(4-amino-2-methylpyrimidin-5-yl)methyl]-4-methyl-5-(2-{[(phosphonatooxy)phosphinato]oxy}ethyl)-1,3-thiazol-3-ium-2-yl}-5-hydroxypentanoate" TD8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(5R)-5-[3-[(4-azanyl-2-methyl-pyrimidin-5-yl)methyl]-4-methyl-5-[2-[oxidanyl(phosphonooxy)phosphoryl]oxyethyl]-1,3-thiazol-3-ium-2-yl]-5-oxidanyl-pentanoic 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 TD8 "Create component" 2013-01-02 EBI TD8 "Other modification" 2013-02-22 EBI TD8 "Initial release" 2013-11-13 RCSB #