data_TPE # _chem_comp.id TPE _chem_comp.name ;3'-O-ACETYLTHYMIDINE-(5' DIPHOSPHATE PHENYL ESTER) ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H22 N2 O12 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2000-03-09 _chem_comp.pdbx_modified_date 2011-06-04 _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 520.321 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TPE _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1DZT _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 TPE C1B C1B C 0 1 Y N N 24.190 23.431 17.202 -1.116 0.476 -6.421 C1B TPE 1 TPE C2B C2B C 0 1 Y N N 23.059 23.027 17.977 -2.016 -0.534 -6.727 C2B TPE 2 TPE C3B C3B C 0 1 Y N N 23.203 21.975 18.952 -1.910 -1.211 -7.926 C3B TPE 3 TPE C4B C4B C 0 1 Y N N 24.477 21.331 19.149 -0.909 -0.882 -8.822 C4B TPE 4 TPE C5B C5B C 0 1 Y N N 25.607 21.745 18.366 -0.011 0.124 -8.519 C5B TPE 5 TPE C6B C6B C 0 1 Y N N 25.463 22.792 17.394 -0.116 0.808 -7.323 C6B TPE 6 TPE PA PA P 0 1 N N R 22.522 27.107 18.347 0.522 0.227 -1.732 PA TPE 7 TPE O1A O1A O 0 1 N N N 21.280 26.453 17.887 1.913 0.194 -2.234 O1A TPE 8 TPE O2A O2A O 0 1 N N N 22.341 28.561 18.530 -0.046 -1.275 -1.628 O2A TPE 9 TPE O3A O3A O 0 1 N N N 23.689 26.950 17.228 -0.394 1.079 -2.745 O3A TPE 10 TPE PB PB P 0 1 N N S 24.532 25.927 16.386 -0.319 0.340 -4.173 PB TPE 11 TPE O1B O1B O 0 1 N N N 24.234 26.713 15.037 1.085 0.305 -4.638 O1B TPE 12 TPE O2B O2B O 0 1 N N N 25.987 25.970 16.739 -0.874 -1.164 -4.029 O2B TPE 13 TPE O3B O3B O 0 1 N N N 24.030 24.503 16.193 -1.218 1.143 -5.241 O3B TPE 14 TPE "O5'" O5* O 0 1 N N N 23.079 26.484 19.693 0.493 0.914 -0.276 "O5'" TPE 15 TPE "C5'" C5* C 0 1 N N N 24.275 26.952 20.336 1.320 0.116 0.573 "C5'" TPE 16 TPE "C4'" C4* C 0 1 N N R 24.488 26.054 21.541 1.336 0.717 1.980 "C4'" TPE 17 TPE "O4'" O4* O 0 1 N N N 23.594 26.448 22.607 0.002 0.724 2.539 "O4'" TPE 18 TPE "C3'" C3* C 0 1 N N S 24.233 24.547 21.265 2.160 -0.167 2.941 "C3'" TPE 19 TPE "O3'" O3* O 0 1 N N N 25.218 23.693 21.915 3.501 0.364 3.100 "O3'" TPE 20 TPE CR CR C 0 1 N N N 26.469 23.684 21.286 4.520 -0.459 3.389 CR TPE 21 TPE OR OR O 0 1 N N N 26.899 24.514 20.404 4.322 -1.644 3.517 OR TPE 22 TPE CHR CHR C 0 1 N N N 27.441 22.631 21.717 5.913 0.093 3.553 CHR TPE 23 TPE "C2'" C2* C 0 1 N N N 22.832 24.345 21.895 1.387 -0.096 4.277 "C2'" TPE 24 TPE "C1'" C1* C 0 1 N N R 22.799 25.364 23.026 0.187 0.826 3.968 "C1'" TPE 25 TPE N1 N1 N 0 1 Y N N 21.474 25.855 23.462 -1.008 0.360 4.674 N1 TPE 26 TPE C2 C2 C 0 1 Y N N 21.072 25.695 24.787 -1.490 -0.871 4.427 C2 TPE 27 TPE O2 O2 O 0 1 N N N 21.748 25.149 25.650 -0.924 -1.586 3.624 O2 TPE 28 TPE N3 N3 N 0 1 Y N N 19.831 26.229 25.057 -2.585 -1.326 5.065 N3 TPE 29 TPE C4 C4 C 0 1 Y N N 18.940 26.891 24.191 -3.224 -0.545 5.959 C4 TPE 30 TPE O4 O4 O 0 1 N N N 17.883 27.298 24.620 -4.218 -0.954 6.533 O4 TPE 31 TPE C5 C5 C 0 1 Y N N 19.427 27.001 22.840 -2.731 0.754 6.224 C5 TPE 32 TPE C5M C5M C 0 1 N N N 18.630 27.647 21.745 -3.427 1.648 7.218 C5M TPE 33 TPE C6 C6 C 0 1 Y N N 20.630 26.503 22.532 -1.628 1.184 5.574 C6 TPE 34 TPE H2B H2B H 0 1 N N N 22.085 23.521 17.824 -2.797 -0.792 -6.027 H2B TPE 35 TPE H3B H3B H 0 1 N N N 22.332 21.660 19.551 -2.610 -1.998 -8.165 H3B TPE 36 TPE H4B H4B H 0 1 N N N 24.586 20.525 19.894 -0.829 -1.412 -9.759 H4B TPE 37 TPE H5B H5B H 0 1 N N N 26.586 21.258 18.511 0.769 0.379 -9.220 H5B TPE 38 TPE H6B H6B H 0 1 N N N 26.332 23.106 16.793 0.584 1.594 -7.087 H6B TPE 39 TPE HPA2 2HPA H 0 0 N N N 23.139 28.981 18.825 -0.953 -1.208 -1.298 HPA2 TPE 40 TPE HPB2 2HPB H 0 0 N N N 26.497 25.351 16.229 -1.789 -1.096 -3.725 HPB2 TPE 41 TPE "H5'2" 2H5* H 0 0 N N N 25.156 26.995 19.654 2.334 0.094 0.176 "H5'2" TPE 42 TPE "H5'1" 1H5* H 0 0 N N N 24.245 28.036 20.591 0.924 -0.898 0.616 "H5'1" TPE 43 TPE "H4'" H4* H 0 1 N N N 25.562 26.177 21.813 1.742 1.728 1.955 "H4'" TPE 44 TPE "H3'" H3* H 0 1 N N N 24.300 24.281 20.184 2.198 -1.194 2.577 "H3'" TPE 45 TPE HHR3 3HHR H 0 0 N N N 28.437 22.623 21.216 6.601 -0.719 3.783 HHR3 TPE 46 TPE HHR2 2HHR H 0 0 N N N 27.581 22.685 22.821 6.222 0.580 2.628 HHR2 TPE 47 TPE HHR1 1HHR H 0 0 N N N 26.968 21.626 21.617 5.922 0.818 4.366 HHR1 TPE 48 TPE "H2'2" 2H2* H 0 0 N N N 21.985 24.428 21.174 1.042 -1.086 4.573 "H2'2" TPE 49 TPE "H2'1" 1H2* H 0 0 N N N 22.614 23.298 22.210 2.012 0.339 5.057 "H2'1" TPE 50 TPE "H1'" H1* H 0 1 N N N 23.176 24.837 23.933 0.416 1.854 4.249 "H1'" TPE 51 TPE H3 H3 H 0 1 N N N 19.532 26.119 26.026 -2.917 -2.218 4.878 H3 TPE 52 TPE H5M3 3H5M H 0 0 N N N 19.007 27.732 20.699 -4.290 1.126 7.634 H5M3 TPE 53 TPE H5M2 2H5M H 0 0 N N N 17.638 27.137 21.705 -2.737 1.905 8.022 H5M2 TPE 54 TPE H5M1 1H5M H 0 0 N N N 18.355 28.671 22.088 -3.759 2.558 6.719 H5M1 TPE 55 TPE H6 H6 H 0 1 N N N 20.935 26.630 21.479 -1.237 2.172 5.763 H6 TPE 56 # 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 TPE C1B C2B DOUB Y N 1 TPE C1B C6B SING Y N 2 TPE C1B O3B SING N N 3 TPE C2B C3B SING Y N 4 TPE C2B H2B SING N N 5 TPE C3B C4B DOUB Y N 6 TPE C3B H3B SING N N 7 TPE C4B C5B SING Y N 8 TPE C4B H4B SING N N 9 TPE C5B C6B DOUB Y N 10 TPE C5B H5B SING N N 11 TPE C6B H6B SING N N 12 TPE PA O1A DOUB N N 13 TPE PA O2A SING N N 14 TPE PA O3A SING N N 15 TPE PA "O5'" SING N N 16 TPE O2A HPA2 SING N N 17 TPE O3A PB SING N N 18 TPE PB O1B DOUB N N 19 TPE PB O2B SING N N 20 TPE PB O3B SING N N 21 TPE O2B HPB2 SING N N 22 TPE "O5'" "C5'" SING N N 23 TPE "C5'" "C4'" SING N N 24 TPE "C5'" "H5'2" SING N N 25 TPE "C5'" "H5'1" SING N N 26 TPE "C4'" "O4'" SING N N 27 TPE "C4'" "C3'" SING N N 28 TPE "C4'" "H4'" SING N N 29 TPE "O4'" "C1'" SING N N 30 TPE "C3'" "O3'" SING N N 31 TPE "C3'" "C2'" SING N N 32 TPE "C3'" "H3'" SING N N 33 TPE "O3'" CR SING N N 34 TPE CR OR DOUB N N 35 TPE CR CHR SING N N 36 TPE CHR HHR3 SING N N 37 TPE CHR HHR2 SING N N 38 TPE CHR HHR1 SING N N 39 TPE "C2'" "C1'" SING N N 40 TPE "C2'" "H2'2" SING N N 41 TPE "C2'" "H2'1" SING N N 42 TPE "C1'" N1 SING N N 43 TPE "C1'" "H1'" SING N N 44 TPE N1 C2 SING Y N 45 TPE N1 C6 SING Y N 46 TPE C2 O2 DOUB N N 47 TPE C2 N3 SING Y N 48 TPE N3 C4 SING Y N 49 TPE N3 H3 SING N N 50 TPE C4 O4 DOUB N N 51 TPE C4 C5 SING Y N 52 TPE C5 C5M SING N N 53 TPE C5 C6 DOUB Y N 54 TPE C5M H5M3 SING N N 55 TPE C5M H5M2 SING N N 56 TPE C5M H5M1 SING N N 57 TPE C6 H6 SING N N 58 # 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 TPE SMILES ACDLabs 10.04 "O=P(O)(Oc1ccccc1)OP(=O)(O)OCC3OC(N2C(=O)NC(=O)C(=C2)C)CC3OC(=O)C" TPE SMILES_CANONICAL CACTVS 3.341 "CC(=O)O[C@H]1C[C@@H](O[C@@H]1CO[P@](O)(=O)O[P@](O)(=O)Oc2ccccc2)N3C=C(C)C(=O)NC3=O" TPE SMILES CACTVS 3.341 "CC(=O)O[CH]1C[CH](O[CH]1CO[P](O)(=O)O[P](O)(=O)Oc2ccccc2)N3C=C(C)C(=O)NC3=O" TPE SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@@](=O)(O)O[P@@](=O)(O)Oc3ccccc3)OC(=O)C" TPE SMILES "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)OP(=O)(O)Oc3ccccc3)OC(=O)C" TPE InChI InChI 1.03 "InChI=1S/C18H22N2O12P2/c1-11-9-20(18(23)19-17(11)22)16-8-14(29-12(2)21)15(30-16)10-28-33(24,25)32-34(26,27)31-13-6-4-3-5-7-13/h3-7,9,14-16H,8,10H2,1-2H3,(H,24,25)(H,26,27)(H,19,22,23)/t14-,15+,16+/m0/s1" TPE InChIKey InChI 1.03 FBXZTUIVKSOQAY-ARFHVFGLSA-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 TPE "SYSTEMATIC NAME" ACDLabs 10.04 "3'-O-acetyl-5'-O-[(R)-hydroxy{[(S)-hydroxy(phenoxy)phosphoryl]oxy}phosphoryl]thymidine" TPE "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-2-[[hydroxy-(hydroxy-phenoxy-phosphoryl)oxy-phosphoryl]oxymethyl]-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-3-yl] ethanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site TPE "Create component" 2000-03-09 EBI TPE "Modify descriptor" 2011-06-04 RCSB #