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 
# 
