data_C5Y # _chem_comp.id C5Y _chem_comp.name "5'-O-[(S)-hydroxy(octanoyloxy)phosphoryl]adenosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H28 N5 O8 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-11-19 _chem_comp.pdbx_modified_date 2021-12-31 _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 473.417 _chem_comp.one_letter_code ? _chem_comp.three_letter_code C5Y _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 7KYD _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 C5Y C15 C1 C 0 1 N N N -16.061 -6.251 12.667 -5.090 0.250 -0.670 C15 C5Y 1 C5Y C17 C2 C 0 1 N N N -14.508 -8.071 12.046 -7.427 1.134 -0.666 C17 C5Y 2 C5Y C20 C3 C 0 1 N N N -11.958 -9.931 9.969 -11.094 2.027 0.094 C20 C5Y 3 C5Y C21 C4 C 0 1 N N N -11.446 -11.367 10.079 -12.101 2.900 -0.658 C21 C5Y 4 C5Y C24 C5 C 0 1 N N S -17.052 -1.573 8.692 3.177 -2.854 0.025 C24 C5Y 5 C5Y C26 C6 C 0 1 N N R -15.839 -0.863 8.099 4.248 -1.772 0.306 C26 C5Y 6 C5Y C28 C7 C 0 1 Y N N -13.909 -3.452 9.274 3.588 1.529 0.743 C28 C5Y 7 C5Y C02 C8 C 0 1 Y N N -11.099 -3.645 6.876 6.667 3.252 0.277 C02 C5Y 8 C5Y C03 C9 C 0 1 Y N N -12.282 -3.388 7.825 5.511 2.457 0.365 C03 C5Y 9 C5Y C04 C10 C 0 1 Y N N -12.854 -2.149 7.896 5.490 1.239 -0.335 C04 C5Y 10 C5Y C06 C11 C 0 1 N N R -14.731 -1.048 9.169 3.773 -0.603 -0.594 C06 C5Y 11 C5Y C08 C12 C 0 1 N N R -16.974 -1.290 9.953 1.975 -2.062 -0.525 C08 C5Y 12 C5Y C09 C13 C 0 1 N N N -17.586 -2.328 10.888 0.748 -2.299 0.356 C09 C5Y 13 C5Y C14 C14 C 0 1 N N N -16.163 -4.781 13.058 -4.098 -0.609 0.071 C14 C5Y 14 C5Y C16 C15 C 0 1 N N N -14.599 -6.682 12.668 -6.420 0.261 0.086 C16 C5Y 15 C5Y C18 C16 C 0 1 N N N -13.287 -8.162 11.136 -8.757 1.144 0.090 C18 C5Y 16 C5Y C19 C17 C 0 1 N N N -12.709 -9.569 11.248 -9.764 2.017 -0.662 C19 C5Y 17 C5Y C31 C18 C 0 1 Y N N -11.198 -1.277 6.138 7.615 1.662 -1.101 C31 C5Y 18 C5Y N01 N1 N 0 1 N N N -10.483 -4.958 6.790 6.746 4.462 0.945 N01 C5Y 19 C5Y N05 N2 N 0 1 Y N N -13.851 -2.196 8.787 4.264 0.678 -0.079 N05 C5Y 20 C5Y N29 N3 N 0 1 Y N N -12.938 -4.174 8.675 4.320 2.574 1.000 N29 C5Y 21 C5Y N30 N4 N 0 1 Y N N -12.324 -1.039 7.044 6.554 0.885 -1.048 N30 C5Y 22 C5Y N32 N5 N 0 1 Y N N -10.596 -2.584 6.065 7.682 2.815 -0.461 N32 C5Y 23 C5Y O07 O1 O 0 1 N N N -15.376 -1.220 10.269 2.333 -0.670 -0.500 O07 C5Y 24 C5Y O10 O2 O 0 1 N N N -16.963 -2.192 12.141 -0.388 -1.656 -0.225 O10 C5Y 25 C5Y O12 O3 O 0 1 N N N -19.201 -2.620 13.369 -1.781 -1.204 1.831 O12 C5Y 26 C5Y O13 O4 O 0 1 N N N -17.311 -4.324 13.711 -2.855 -0.766 -0.411 O13 C5Y 27 C5Y O22 O5 O 0 1 N N N -15.277 -4.031 12.812 -4.422 -1.157 1.098 O22 C5Y 28 C5Y O23 O6 O 0 1 N N N -17.236 -1.959 14.714 -2.401 -3.214 0.435 O23 C5Y 29 C5Y O25 O7 O 0 1 N N N -18.311 -0.971 8.122 3.649 -3.787 -0.949 O25 C5Y 30 C5Y O27 O8 O 0 1 N N N -16.130 0.454 7.915 5.545 -2.224 -0.089 O27 C5Y 31 C5Y P11 P1 P 0 1 N N N -17.703 -2.743 13.509 -1.855 -1.699 0.438 P11 C5Y 32 C5Y H151 H1 H 0 0 N N N -16.483 -6.392 11.661 -4.705 1.268 -0.743 H151 C5Y 33 C5Y H152 H2 H 0 0 N N N -16.623 -6.861 13.389 -5.244 -0.153 -1.671 H152 C5Y 34 C5Y H172 H3 H 0 0 N N N -15.416 -8.265 11.456 -7.043 2.151 -0.739 H172 C5Y 35 C5Y H171 H4 H 0 0 N N N -14.422 -8.822 12.845 -7.581 0.730 -1.667 H171 C5Y 36 C5Y H201 H5 H 0 0 N N N -11.108 -9.246 9.835 -10.940 2.431 1.095 H201 C5Y 37 C5Y H202 H6 H 0 0 N N N -12.636 -9.847 9.107 -11.479 1.010 0.168 H202 C5Y 38 C5Y H212 H7 H 0 0 N N N -10.904 -11.635 9.160 -11.717 3.917 -0.731 H212 C5Y 39 C5Y H213 H8 H 0 0 N N N -10.769 -11.450 10.942 -12.255 2.497 -1.658 H213 C5Y 40 C5Y H211 H9 H 0 0 N N N -12.297 -12.050 10.214 -13.049 2.908 -0.119 H211 C5Y 41 C5Y H241 H10 H 0 0 N N N -17.007 -2.650 8.472 2.905 -3.369 0.946 H241 C5Y 42 C5Y H261 H11 H 0 0 N N N -15.535 -1.359 7.166 4.242 -1.482 1.356 H261 C5Y 43 C5Y H281 H12 H 0 0 N N N -14.608 -3.816 10.012 2.590 1.364 1.122 H281 C5Y 44 C5Y H061 H13 H 0 0 N N N -14.124 -0.131 9.190 4.097 -0.754 -1.623 H061 C5Y 45 C5Y H081 H14 H 0 0 N N N -17.402 -0.304 10.188 1.765 -2.372 -1.549 H081 C5Y 46 C5Y H091 H15 H 0 0 N N N -18.668 -2.153 10.986 0.559 -3.370 0.435 H091 C5Y 47 C5Y H092 H16 H 0 0 N N N -17.413 -3.339 10.491 0.929 -1.889 1.350 H092 C5Y 48 C5Y H162 H17 H 0 0 N N N -14.221 -6.712 13.701 -6.804 -0.756 0.159 H162 C5Y 49 C5Y H161 H18 H 0 0 N N N -14.001 -5.971 12.079 -6.266 0.664 1.087 H161 C5Y 50 C5Y H182 H19 H 0 0 N N N -12.534 -7.424 11.450 -9.141 0.127 0.164 H182 C5Y 51 C5Y H181 H20 H 0 0 N N N -13.583 -7.963 10.095 -8.603 1.548 1.091 H181 C5Y 52 C5Y H192 H21 H 0 0 N N N -13.527 -10.287 11.405 -9.918 1.614 -1.663 H192 C5Y 53 C5Y H191 H22 H 0 0 N N N -12.016 -9.611 12.101 -9.380 3.034 -0.735 H191 C5Y 54 C5Y H311 H23 H 0 0 N N N -10.819 -0.473 5.525 8.463 1.344 -1.689 H311 C5Y 55 C5Y H012 H24 H 0 0 N N N -9.737 -4.934 6.125 5.999 4.770 1.481 H012 C5Y 56 C5Y H011 H25 H 0 0 N N N -10.122 -5.216 7.686 7.549 5.002 0.877 H011 C5Y 57 C5Y H1 H26 H 0 1 N N N -17.983 -1.550 15.135 -2.475 -3.603 -0.447 H1 C5Y 58 C5Y H251 H27 H 0 0 N N N -19.068 -1.412 8.490 4.405 -4.314 -0.655 H251 C5Y 59 C5Y H271 H28 H 0 0 N N N -15.375 0.897 7.546 5.849 -3.010 0.384 H271 C5Y 60 # # 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 C5Y N32 C31 DOUB Y N 1 C5Y N32 C02 SING Y N 2 C5Y C31 N30 SING Y N 3 C5Y N01 C02 SING N N 4 C5Y C02 C03 DOUB Y N 5 C5Y N30 C04 DOUB Y N 6 C5Y C03 C04 SING Y N 7 C5Y C03 N29 SING Y N 8 C5Y C04 N05 SING Y N 9 C5Y O27 C26 SING N N 10 C5Y C26 C24 SING N N 11 C5Y C26 C06 SING N N 12 C5Y O25 C24 SING N N 13 C5Y N29 C28 DOUB Y N 14 C5Y C24 C08 SING N N 15 C5Y N05 C06 SING N N 16 C5Y N05 C28 SING Y N 17 C5Y C06 O07 SING N N 18 C5Y C08 O07 SING N N 19 C5Y C08 C09 SING N N 20 C5Y C20 C21 SING N N 21 C5Y C20 C19 SING N N 22 C5Y C09 O10 SING N N 23 C5Y C18 C19 SING N N 24 C5Y C18 C17 SING N N 25 C5Y C17 C16 SING N N 26 C5Y O10 P11 SING N N 27 C5Y C15 C16 SING N N 28 C5Y C15 C14 SING N N 29 C5Y O22 C14 DOUB N N 30 C5Y C14 O13 SING N N 31 C5Y O12 P11 DOUB N N 32 C5Y P11 O13 SING N N 33 C5Y P11 O23 SING N N 34 C5Y C15 H151 SING N N 35 C5Y C15 H152 SING N N 36 C5Y C17 H172 SING N N 37 C5Y C17 H171 SING N N 38 C5Y C20 H201 SING N N 39 C5Y C20 H202 SING N N 40 C5Y C21 H212 SING N N 41 C5Y C21 H213 SING N N 42 C5Y C21 H211 SING N N 43 C5Y C24 H241 SING N N 44 C5Y C26 H261 SING N N 45 C5Y C28 H281 SING N N 46 C5Y C06 H061 SING N N 47 C5Y C08 H081 SING N N 48 C5Y C09 H091 SING N N 49 C5Y C09 H092 SING N N 50 C5Y C16 H162 SING N N 51 C5Y C16 H161 SING N N 52 C5Y C18 H182 SING N N 53 C5Y C18 H181 SING N N 54 C5Y C19 H192 SING N N 55 C5Y C19 H191 SING N N 56 C5Y C31 H311 SING N N 57 C5Y N01 H012 SING N N 58 C5Y N01 H011 SING N N 59 C5Y O23 H1 SING N N 60 C5Y O25 H251 SING N N 61 C5Y O27 H271 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 C5Y SMILES ACDLabs 12.01 "CCCCCCCC(=O)OP(=O)(O)OCC1OC(n2cnc3c(N)ncnc32)C(O)C1O" C5Y InChI InChI 1.03 "InChI=1S/C18H28N5O8P/c1-2-3-4-5-6-7-12(24)31-32(27,28)29-8-11-14(25)15(26)18(30-11)23-10-22-13-16(19)20-9-21-17(13)23/h9-11,14-15,18,25-26H,2-8H2,1H3,(H,27,28)(H2,19,20,21)/t11-,14-,15-,18-/m1/s1" C5Y InChIKey InChI 1.03 AJYSFZDSJUTHRW-XKLVTHTNSA-N C5Y SMILES_CANONICAL CACTVS 3.385 "CCCCCCCC(=O)O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23" C5Y SMILES CACTVS 3.385 "CCCCCCCC(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23" C5Y SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCCCCC(=O)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O" C5Y SMILES "OpenEye OEToolkits" 2.0.7 "CCCCCCCC(=O)OP(=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 C5Y "SYSTEMATIC NAME" ACDLabs 12.01 "5'-O-[(S)-hydroxy(octanoyloxy)phosphoryl]adenosine" C5Y "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]methoxy-oxidanyl-phosphoryl] octanoate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site C5Y "Create component" 2021-11-19 RCSB C5Y "Initial release" 2022-01-05 RCSB ##