data_TPW # _chem_comp.id TPW _chem_comp.name "2-{4-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-3-METHYLTHIOPHEN-2-YL}ETHYL TRIHYDROGEN DIPHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H19 N3 O7 P2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms 3-DEAZA-THDP _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2007-02-26 _chem_comp.pdbx_modified_date 2020-06-17 _chem_comp.pdbx_ambiguous_flag ? _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 423.318 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TPW _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details "OpenEye/OEToolkits V1.4.2" _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code ? _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 TPW C2A C2A C 0 1 N N N 68.400 -4.148 -4.231 -2.236 5.621 5.026 C2A TPW 1 TPW C35 C35 C 0 1 N N N 74.095 -4.281 -3.221 1.552 5.167 0.843 C35 TPW 2 TPW C2 C2 C 0 1 Y N N 75.048 -6.300 -2.042 0.525 4.230 -1.259 C2 TPW 3 TPW S1 S1 S 0 1 Y N N 75.312 -6.998 -0.474 0.387 2.772 -2.147 S1 TPW 4 TPW C5 C5 C 0 1 Y N N 74.561 -5.609 0.240 1.327 1.942 -0.996 C5 TPW 5 TPW C4 C4 C 0 1 Y N N 74.140 -4.679 -0.706 1.740 2.731 0.037 C4 TPW 6 TPW C4A C4A C 0 1 N N N 73.455 -3.388 -0.339 2.570 2.264 1.175 C4A TPW 7 TPW C5A C5A C 0 1 N N N 74.422 -5.590 1.742 1.601 0.481 -1.216 C5A TPW 8 TPW C5B C5B C 0 1 N N N 75.559 -6.247 2.522 0.544 -0.421 -0.587 C5B TPW 9 TPW O5G O5G O 0 1 N N N 75.349 -6.015 3.897 -0.719 -0.160 -1.174 O5G TPW 10 TPW P1 P1 P 0 1 N N S 74.664 -7.131 4.831 -2.024 -0.984 -0.686 P1 TPW 11 TPW O11 O11 O 0 1 N N N 75.735 -8.342 4.845 -2.062 -0.773 0.916 O11 TPW 12 TPW O12 O12 O 0 1 N N N 73.387 -7.688 4.259 -1.602 -2.538 -0.845 O12 TPW 13 TPW O13 O13 O 0 1 N N N 74.459 -6.519 6.185 -3.299 -0.614 -1.386 O13 TPW 14 TPW P2 P2 P 0 1 N N N 76.966 -8.521 5.870 -2.309 0.554 1.805 P2 TPW 15 TPW O21 O21 O 0 1 N N N 78.236 -8.610 5.067 -2.370 -0.022 3.314 O21 TPW 16 TPW O22 O22 O 0 1 N N N 77.012 -7.368 6.836 -1.312 1.652 1.580 O22 TPW 17 TPW O23 O23 O 0 1 N N N 76.802 -9.825 6.612 -3.845 0.938 1.484 O23 TPW 18 TPW "N1'" N1* N 0 1 Y N N 70.517 -3.054 -3.528 -0.188 4.701 4.139 "N1'" TPW 19 TPW "C2'" C2* C 0 1 Y N N 69.869 -4.182 -3.971 -1.243 5.508 3.920 "C2'" TPW 20 TPW "N3'" N3* N 0 1 Y N N 70.578 -5.348 -4.167 -1.498 6.224 2.808 "N3'" TPW 21 TPW "C4'" C4* C 0 1 Y N N 71.946 -5.406 -3.940 -0.580 6.098 1.827 "C4'" TPW 22 TPW "N4'" N4* N 0 1 N N N 72.617 -6.556 -4.143 -0.784 6.822 0.627 "N4'" TPW 23 TPW "C5'" C5* C 0 1 Y N N 72.602 -4.265 -3.493 0.522 5.306 1.950 "C5'" TPW 24 TPW "C6'" C6* C 0 1 Y N N 71.878 -3.090 -3.294 0.690 4.621 3.117 "C6'" TPW 25 TPW C3 C3 C 0 1 Y N N 74.421 -5.077 -1.981 1.273 4.069 -0.113 C3 TPW 26 TPW H2A1 1H2A H 0 0 N N N 68.188 -3.317 -4.944 -3.051 6.298 4.742 H2A1 TPW 27 TPW H2A2 2H2A H 0 0 N N N 67.888 -3.787 -3.309 -2.668 4.643 5.276 H2A2 TPW 28 TPW H2A3 3H2A H 0 0 N N N 67.874 -5.063 -4.590 -1.769 6.005 5.943 H2A3 TPW 29 TPW H351 1H35 H 0 0 N N N 74.511 -3.248 -3.164 1.635 6.138 0.317 H351 TPW 30 TPW H352 2H35 H 0 0 N N N 74.667 -4.649 -4.105 2.550 5.043 1.307 H352 TPW 31 TPW H2 H2 H 0 1 N N N 75.277 -6.631 -3.069 0.050 5.131 -1.620 H2 TPW 32 TPW H5A1 1H5A H 0 0 N N N 73.447 -6.042 2.039 1.665 0.278 -2.293 H5A1 TPW 33 TPW H5A2 2H5A H 0 0 N N N 74.273 -4.543 2.097 2.582 0.233 -0.791 H5A2 TPW 34 TPW H4A1 1H4A H 0 0 N N N 72.494 -3.361 -0.904 3.175 3.088 1.580 H4A1 TPW 35 TPW H4A2 2H4A H 0 0 N N N 74.043 -2.566 -0.811 1.951 1.862 1.991 H4A2 TPW 36 TPW H4A3 3H4A H 0 0 N N N 73.225 -3.063 0.702 3.253 1.454 0.875 H4A3 TPW 37 TPW H5B1 1H5B H 0 0 N N N 76.565 -5.909 2.179 0.792 -1.470 -0.777 H5B1 TPW 38 TPW H5B2 2H5B H 0 0 N N N 75.673 -7.330 2.283 0.469 -0.267 0.495 H5B2 TPW 39 TPW H12 H12 H 0 1 N N N 72.982 -8.347 4.811 -1.644 -2.953 -1.733 H12 TPW 40 TPW H21 H21 H 0 1 N N N 78.962 -8.715 5.671 -2.427 0.610 4.062 H21 TPW 41 TPW H23 H23 H 0 1 N N N 77.528 -9.930 7.216 -4.215 1.768 1.854 H23 TPW 42 TPW "H6'" H6* H 0 1 N N N 72.389 -2.176 -2.947 1.540 3.970 3.297 "H6'" TPW 43 TPW "H4'1" 1H4* H 0 0 N N N 73.111 -6.791 -3.282 -1.717 7.022 0.338 "H4'1" TPW 44 TPW "H4'2" 2H4* H 0 0 N N N 72.136 -7.393 -4.471 0.003 7.033 0.052 "H4'2" TPW 45 # # 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 TPW C2 S1 SING Y N 1 TPW S1 C5 SING Y N 2 TPW C5 C4 DOUB Y N 3 TPW C4 C4A SING N N 4 TPW C5 C5A SING N N 5 TPW C5A C5B SING N N 6 TPW C5B O5G SING N N 7 TPW O5G P1 SING N N 8 TPW P1 O11 SING N N 9 TPW P1 O12 SING N N 10 TPW P1 O13 DOUB N N 11 TPW O11 P2 SING N N 12 TPW P2 O21 SING N N 13 TPW P2 O22 DOUB N N 14 TPW P2 O23 SING N N 15 TPW C2A "C2'" SING N N 16 TPW "N1'" "C2'" SING Y N 17 TPW "C2'" "N3'" DOUB Y N 18 TPW "N3'" "C4'" SING Y N 19 TPW "C4'" "N4'" SING N N 20 TPW C35 "C5'" SING N N 21 TPW "C4'" "C5'" DOUB Y N 22 TPW "N1'" "C6'" DOUB Y N 23 TPW "C5'" "C6'" SING Y N 24 TPW C35 C3 SING N N 25 TPW C2 C3 DOUB Y N 26 TPW C4 C3 SING Y N 27 TPW C2A H2A1 SING N N 28 TPW C2A H2A2 SING N N 29 TPW C2A H2A3 SING N N 30 TPW C35 H351 SING N N 31 TPW C35 H352 SING N N 32 TPW C2 H2 SING N N 33 TPW C5A H5A1 SING N N 34 TPW C5A H5A2 SING N N 35 TPW C4A H4A1 SING N N 36 TPW C4A H4A2 SING N N 37 TPW C4A H4A3 SING N N 38 TPW C5B H5B1 SING N N 39 TPW C5B H5B2 SING N N 40 TPW O12 H12 SING N N 41 TPW O21 H21 SING N N 42 TPW O23 H23 SING N N 43 TPW "C6'" "H6'" SING N N 44 TPW "N4'" "H4'1" SING N N 45 TPW "N4'" "H4'2" SING N N 46 # # 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 TPW SMILES ACDLabs 10.04 "O=P(O)(O)OP(=O)(O)OCCc1scc(c1C)Cc2c(nc(nc2)C)N" TPW SMILES_CANONICAL CACTVS 3.341 "Cc1ncc(Cc2csc(CCO[P@](O)(=O)O[P](O)(O)=O)c2C)c(N)n1" TPW SMILES CACTVS 3.341 "Cc1ncc(Cc2csc(CCO[P](O)(=O)O[P](O)(O)=O)c2C)c(N)n1" TPW SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1c(csc1CCO[P@@](=O)(O)OP(=O)(O)O)Cc2cnc(nc2N)C" TPW SMILES "OpenEye OEToolkits" 1.5.0 "Cc1c(csc1CCOP(=O)(O)OP(=O)(O)O)Cc2cnc(nc2N)C" TPW InChI InChI 1.03 "InChI=1S/C13H19N3O7P2S/c1-8-11(5-10-6-15-9(2)16-13(10)14)7-26-12(8)3-4-22-25(20,21)23-24(17,18)19/h6-7H,3-5H2,1-2H3,(H,20,21)(H2,14,15,16)(H2,17,18,19)" TPW InChIKey InChI 1.03 IOGGWTLVIZLGGZ-UHFFFAOYSA-N # # 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 TPW "SYSTEMATIC NAME" ACDLabs 10.04 "2-{4-[(4-amino-2-methylpyrimidin-5-yl)methyl]-3-methylthiophen-2-yl}ethyl trihydrogen diphosphate" TPW "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "2-[4-[(4-amino-2-methyl-pyrimidin-5-yl)methyl]-3-methyl-thiophen-2-yl]ethyl 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 TPW "Create component" 2007-02-26 EBI TPW "Modify descriptor" 2011-06-04 RCSB TPW "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id TPW _pdbx_chem_comp_synonyms.name 3-DEAZA-THDP _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##