data_WPO # _chem_comp.id WPO _chem_comp.name "5'-O-{(S)-hydroxy[(prop-2-en-1-yl)oxy]phosphoryl}adenosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H18 N5 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-10-10 _chem_comp.pdbx_modified_date 2022-10-14 _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 387.285 _chem_comp.one_letter_code ? _chem_comp.three_letter_code WPO _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 8EPS _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # 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 WPO "O2'" O1 O 0 1 N N N 14.301 -27.074 10.706 -2.778 -2.899 -0.096 "O2'" WPO 1 WPO "C2'" C1 C 0 1 N N R 14.912 -26.012 10.004 -1.694 -2.042 -0.462 "C2'" WPO 2 WPO "C1'" C2 C 0 1 N N R 14.947 -26.319 8.505 -1.591 -0.837 0.507 "C1'" WPO 3 WPO "O4'" O2 O 0 1 N N N 13.735 -25.805 7.951 -0.205 -0.445 0.409 "O4'" WPO 4 WPO "C4'" C3 C 0 1 N N R 12.959 -25.202 9.011 0.570 -1.654 0.351 "C4'" WPO 5 WPO "C5'" C4 C 0 1 N N N 12.091 -24.097 8.472 1.794 -1.444 -0.543 "C5'" WPO 6 WPO "O5'" O3 O 0 1 N N N 11.031 -24.658 7.670 2.675 -0.500 0.069 "O5'" WPO 7 WPO P P1 P 0 1 N N N 10.359 -23.602 6.672 4.067 -0.041 -0.597 P WPO 8 WPO O1P O4 O 0 1 N N N 9.446 -24.333 5.759 4.894 -1.234 -0.886 O1P WPO 9 WPO O2P O5 O 0 1 N N N 9.868 -22.440 7.455 3.771 0.752 -1.967 O2P WPO 10 WPO O3P O6 O 0 1 N N N 11.705 -23.176 5.915 4.856 0.925 0.421 O3P WPO 11 WPO C1P C5 C 0 1 N N N 11.729 -21.988 5.131 6.173 1.417 0.165 C1P WPO 12 WPO C2P C6 C 0 1 N N N 13.137 -21.524 5.076 6.616 2.289 1.312 C2P WPO 13 WPO C3P C7 C 0 1 N N N 14.139 -22.249 4.673 7.820 2.155 1.809 C3P WPO 14 WPO "C3'" C8 C 0 1 N N S 14.023 -24.769 10.021 -0.334 -2.749 -0.247 "C3'" WPO 15 WPO "O3'" O7 O 0 1 N N N 13.412 -24.449 11.262 -0.475 -3.836 0.670 "O3'" WPO 16 WPO N9 N1 N 0 1 Y N N 16.067 -25.695 7.797 -2.470 0.252 0.071 N9 WPO 17 WPO C8 C9 C 0 1 Y N N 16.005 -24.668 6.890 -2.113 1.316 -0.702 C8 WPO 18 WPO N7 N2 N 0 1 Y N N 17.173 -24.312 6.413 -3.143 2.086 -0.900 N7 WPO 19 WPO C5 C10 C 0 1 Y N N 18.067 -25.161 7.052 -4.223 1.567 -0.268 C5 WPO 20 WPO C4 C11 C 0 1 Y N N 17.399 -26.017 7.907 -3.804 0.384 0.363 C4 WPO 21 WPO N3 N3 N 0 1 Y N N 17.957 -26.965 8.680 -4.688 -0.327 1.056 N3 WPO 22 WPO C2 C12 C 0 1 Y N N 19.277 -26.990 8.528 -5.938 0.072 1.156 C2 WPO 23 WPO N1 N4 N 0 1 Y N N 20.052 -26.231 7.745 -6.377 1.179 0.585 N1 WPO 24 WPO C6 C13 C 0 1 Y N N 19.467 -25.285 6.973 -5.568 1.950 -0.133 C6 WPO 25 WPO N6 N5 N 0 1 N N N 20.238 -24.529 6.194 -6.039 3.106 -0.732 N6 WPO 26 WPO H1 H1 H 0 1 N N N 14.285 -26.873 11.634 -2.829 -3.712 -0.617 H1 WPO 27 WPO H2 H2 H 0 1 N N N 15.919 -25.779 10.380 -1.798 -1.705 -1.494 H2 WPO 28 WPO H3 H3 H 0 1 N N N 14.990 -27.410 8.371 -1.833 -1.140 1.525 H3 WPO 29 WPO H4 H4 H 0 1 N N N 12.318 -25.962 9.481 0.886 -1.940 1.354 H4 WPO 30 WPO H5 H5 H 0 1 N N N 12.700 -23.423 7.852 2.314 -2.394 -0.675 H5 WPO 31 WPO H6 H6 H 0 1 N N N 11.656 -23.532 9.310 1.474 -1.067 -1.514 H6 WPO 32 WPO H7 H7 H 0 1 N N N 8.950 -22.292 7.261 3.233 1.547 -1.853 H7 WPO 33 WPO H8 H8 H 0 1 N N N 11.097 -21.217 5.596 6.860 0.578 0.060 H8 WPO 34 WPO H9 H9 H 0 1 N N N 11.362 -22.200 4.116 6.170 2.002 -0.755 H9 WPO 35 WPO H10 H10 H 0 1 N N N 13.345 -20.513 5.393 5.940 3.023 1.724 H10 WPO 36 WPO H11 H11 H 0 1 N N N 15.136 -21.834 4.664 8.496 1.420 1.397 H11 WPO 37 WPO H12 H12 H 0 1 N N N 13.974 -23.266 4.348 8.138 2.779 2.632 H12 WPO 38 WPO H13 H13 H 0 1 N N N 14.582 -23.910 9.621 0.069 -3.100 -1.197 H13 WPO 39 WPO H14 H14 H 0 1 N N N 14.078 -24.181 11.884 -1.080 -4.528 0.369 H14 WPO 40 WPO H15 H15 H 0 1 N N N 15.079 -24.196 6.596 -1.122 1.494 -1.093 H15 WPO 41 WPO H16 H16 H 0 1 N N N 19.798 -27.728 9.121 -6.631 -0.529 1.727 H16 WPO 42 WPO H17 H17 H 0 1 N N N 21.194 -24.797 6.310 -5.438 3.662 -1.252 H17 WPO 43 WPO H18 H18 H 0 1 N N N 19.970 -24.653 5.239 -6.970 3.360 -0.631 H18 WPO 44 # 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 WPO C3P C2P DOUB N N 1 WPO C2P C1P SING N N 2 WPO C1P O3P SING N N 3 WPO O1P P DOUB N N 4 WPO O3P P SING N N 5 WPO N6 C6 SING N N 6 WPO N7 C8 DOUB Y N 7 WPO N7 C5 SING Y N 8 WPO P O2P SING N N 9 WPO P "O5'" SING N N 10 WPO C8 N9 SING Y N 11 WPO C6 C5 DOUB Y N 12 WPO C6 N1 SING Y N 13 WPO C5 C4 SING Y N 14 WPO "O5'" "C5'" SING N N 15 WPO N1 C2 DOUB Y N 16 WPO N9 C4 SING Y N 17 WPO N9 "C1'" SING N N 18 WPO C4 N3 DOUB Y N 19 WPO "O4'" "C1'" SING N N 20 WPO "O4'" "C4'" SING N N 21 WPO "C5'" "C4'" SING N N 22 WPO "C1'" "C2'" SING N N 23 WPO C2 N3 SING Y N 24 WPO "C4'" "C3'" SING N N 25 WPO "C2'" "C3'" SING N N 26 WPO "C2'" "O2'" SING N N 27 WPO "C3'" "O3'" SING N N 28 WPO "O2'" H1 SING N N 29 WPO "C2'" H2 SING N N 30 WPO "C1'" H3 SING N N 31 WPO "C4'" H4 SING N N 32 WPO "C5'" H5 SING N N 33 WPO "C5'" H6 SING N N 34 WPO O2P H7 SING N N 35 WPO C1P H8 SING N N 36 WPO C1P H9 SING N N 37 WPO C2P H10 SING N N 38 WPO C3P H11 SING N N 39 WPO C3P H12 SING N N 40 WPO "C3'" H13 SING N N 41 WPO "O3'" H14 SING N N 42 WPO C8 H15 SING N N 43 WPO C2 H16 SING N N 44 WPO N6 H17 SING N N 45 WPO N6 H18 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 WPO SMILES ACDLabs 12.01 "O=P(O)(OCC=C)OCC1OC(n2cnc3c(N)ncnc32)C(O)C1O" WPO InChI InChI 1.06 "InChI=1S/C13H18N5O7P/c1-2-3-23-26(21,22)24-4-7-9(19)10(20)13(25-7)18-6-17-8-11(14)15-5-16-12(8)18/h2,5-7,9-10,13,19-20H,1,3-4H2,(H,21,22)(H2,14,15,16)/t7-,9-,10-,13-/m1/s1" WPO InChIKey InChI 1.06 LNGYCTNQUWBENP-QYVSTXNMSA-N WPO SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)OCC=C)[C@@H](O)[C@H]3O" WPO SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)OCC=C)[CH](O)[CH]3O" WPO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C=CCOP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O" WPO SMILES "OpenEye OEToolkits" 2.0.7 "C=CCOP(=O)(O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)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 WPO "SYSTEMATIC NAME" ACDLabs 12.01 "5'-O-{(S)-hydroxy[(prop-2-en-1-yl)oxy]phosphoryl}adenosine" WPO "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl prop-2-enyl 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 WPO "Create component" 2022-10-10 RCSB WPO "Initial release" 2022-10-19 RCSB #