data_O05 # _chem_comp.id O05 _chem_comp.name "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-2-piperazin-4-ium-1-yl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]methylphosphonic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H26 N7 O9 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2020-01-13 _chem_comp.pdbx_modified_date 2020-02-14 _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 510.356 _chem_comp.one_letter_code ? _chem_comp.three_letter_code O05 _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 Y _chem_comp.pdbx_model_coordinates_db_code 6TWF _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # # 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 O05 C2 C1 C 0 1 Y N N -12.693 24.888 -36.628 ? ? ? C2 O05 1 O05 C3 C2 C 0 1 N N N -16.799 18.545 -29.799 ? ? ? C3 O05 2 O05 C4 C3 C 0 1 Y N N -13.822 22.995 -36.195 ? ? ? C4 O05 3 O05 C5 C4 C 0 1 Y N N -14.494 23.042 -37.405 ? ? ? C5 O05 4 O05 C6 C5 C 0 1 Y N N -14.227 24.147 -38.235 ? ? ? C6 O05 5 O05 C8 C6 C 0 1 Y N N -15.118 21.252 -36.452 ? ? ? C8 O05 6 O05 C9 C7 C 0 1 N N N -11.060 25.927 -35.066 ? ? ? C9 O05 7 O05 C10 C8 C 0 1 N N N -11.302 27.375 -34.692 ? ? ? C10 O05 8 O05 C11 C9 C 0 1 N N N -11.327 28.005 -37.028 ? ? ? C11 O05 9 O05 C12 C10 C 0 1 N N N -11.040 26.575 -37.410 ? ? ? C12 O05 10 O05 O2A O1 O 0 1 N N N -19.109 18.960 -31.483 ? ? ? O2A O05 11 O05 PA P1 P 0 1 N N N -17.871 18.141 -31.180 ? ? ? PA O05 12 O05 O1A O2 O 0 1 N N N -18.318 16.671 -30.902 ? ? ? O1A O05 13 O05 PB P2 P 0 1 N N N -17.459 19.842 -28.761 ? ? ? PB O05 14 O05 O3B O3 O 0 1 N N N -18.642 19.308 -28.018 ? ? ? O3B O05 15 O05 O1B O4 O 0 1 N N N -17.800 21.034 -29.679 ? ? ? O1B O05 16 O05 O2B O5 O 0 1 N N N -16.306 20.322 -27.863 ? ? ? O2B O05 17 O05 "O5'" O6 O 0 1 N N N -16.711 18.169 -32.247 ? ? ? "O5'" O05 18 O05 "C5'" C11 C 0 1 N N N -16.339 19.287 -33.106 ? ? ? "C5'" O05 19 O05 "C4'" C12 C 0 1 N N R -14.934 19.778 -32.830 ? ? ? "C4'" O05 20 O05 "O4'" O7 O 0 1 N N N -14.244 20.026 -34.081 ? ? ? "O4'" O05 21 O05 "C3'" C13 C 0 1 N N S -14.844 21.088 -32.047 ? ? ? "C3'" O05 22 O05 O7 O8 O 0 1 N N N -13.686 21.118 -31.216 ? ? ? O7 O05 23 O05 "C2'" C14 C 0 1 N N R -14.788 22.135 -33.164 ? ? ? "C2'" O05 24 O05 O8 O9 O 0 1 N N N -14.114 23.339 -32.812 ? ? ? O8 O05 25 O05 "C1'" C15 C 0 1 N N R -13.948 21.408 -34.212 ? ? ? "C1'" O05 26 O05 N9 N1 N 0 1 Y N N -14.242 21.840 -35.578 ? ? ? N9 O05 27 O05 N7 N2 N 0 1 Y N N -15.313 21.935 -37.555 ? ? ? N7 O05 28 O05 N6 N3 N 0 1 N N N -14.794 24.335 -39.433 ? ? ? N6 O05 29 O05 N3 N4 N 0 1 Y N N -12.926 23.885 -35.743 ? ? ? N3 O05 30 O05 N1 N5 N 0 1 Y N N -13.331 25.065 -37.816 ? ? ? N1 O05 31 O05 N2 N6 N 0 1 N N N -11.594 25.660 -36.405 ? ? ? N2 O05 32 O05 N4 N7 N 1 1 N N N -10.744 28.284 -35.709 ? ? ? N4 O05 33 O05 H19 H1 H 0 1 N N N -16.660 17.642 -29.187 ? ? ? H19 O05 34 O05 H18 H2 H 0 1 N N N -15.826 18.873 -30.194 ? ? ? H18 O05 35 O05 H15 H3 H 0 1 N N N -15.605 20.309 -36.251 ? ? ? H15 O05 36 O05 H13 H4 H 0 1 N N N -11.561 25.274 -34.337 ? ? ? H13 O05 37 O05 H14 H5 H 0 1 N N N -9.979 25.724 -35.058 ? ? ? H14 O05 38 O05 H11 H6 H 0 1 N N N -10.823 27.581 -33.724 ? ? ? H11 O05 39 O05 H12 H7 H 0 1 N N N -12.385 27.549 -34.610 ? ? ? H12 O05 40 O05 H9 H8 H 0 1 N N N -10.885 28.680 -37.775 ? ? ? H9 O05 41 O05 H8 H9 H 0 1 N N N -12.415 28.163 -36.989 ? ? ? H8 O05 42 O05 H7 H10 H 0 1 N N N -11.498 26.361 -38.387 ? ? ? H7 O05 43 O05 H6 H11 H 0 1 N N N -9.952 26.428 -37.475 ? ? ? H6 O05 44 O05 H20 H12 H 0 1 N N N -19.262 16.606 -30.982 ? ? ? H20 O05 45 O05 H21 H13 H 0 1 N N N -19.415 19.810 -28.249 ? ? ? H21 O05 46 O05 H22 H14 H 0 1 N N N -16.084 21.219 -28.084 ? ? ? H22 O05 47 O05 H16 H15 H 0 1 N N N -17.043 20.115 -32.935 ? ? ? H16 O05 48 O05 H17 H16 H 0 1 N N N -16.401 18.963 -34.155 ? ? ? H17 O05 49 O05 H1 H17 H 0 1 N N N -14.397 19.001 -32.266 ? ? ? H1 O05 50 O05 H2 H18 H 0 1 N N N -15.760 21.229 -31.455 ? ? ? H2 O05 51 O05 H23 H19 H 0 1 N N N -13.763 20.455 -30.540 ? ? ? H23 O05 52 O05 H3 H20 H 0 1 N N N -15.798 22.330 -33.553 ? ? ? H3 O05 53 O05 H24 H21 H 0 1 N N N -14.621 23.807 -32.160 ? ? ? H24 O05 54 O05 H H22 H 0 1 N N N -12.885 21.587 -33.993 ? ? ? H O05 55 O05 H5 H23 H 0 1 N N N -14.438 25.175 -39.843 ? ? ? H5 O05 56 O05 H4 H24 H 0 1 N N N -14.583 23.559 -40.027 ? ? ? H4 O05 57 O05 H10 H25 H 0 1 N N N -9.753 28.158 -35.754 ? ? ? H10 O05 58 O05 H25 H26 H 0 1 N N N -10.948 29.229 -35.453 ? ? ? H25 O05 59 # # 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 O05 N6 C6 SING N N 1 O05 C6 N1 DOUB Y N 2 O05 C6 C5 SING Y N 3 O05 N1 C2 SING Y N 4 O05 N7 C5 SING Y N 5 O05 N7 C8 DOUB Y N 6 O05 C12 C11 SING N N 7 O05 C12 N2 SING N N 8 O05 C5 C4 DOUB Y N 9 O05 C11 N4 SING N N 10 O05 C2 N2 SING N N 11 O05 C2 N3 DOUB Y N 12 O05 C8 N9 SING Y N 13 O05 N2 C9 SING N N 14 O05 C4 N3 SING Y N 15 O05 C4 N9 SING Y N 16 O05 N4 C10 SING N N 17 O05 N9 "C1'" SING N N 18 O05 C9 C10 SING N N 19 O05 "C1'" "O4'" SING N N 20 O05 "C1'" "C2'" SING N N 21 O05 "O4'" "C4'" SING N N 22 O05 "C2'" O8 SING N N 23 O05 "C2'" "C3'" SING N N 24 O05 "C5'" "C4'" SING N N 25 O05 "C5'" "O5'" SING N N 26 O05 "C4'" "C3'" SING N N 27 O05 "O5'" PA SING N N 28 O05 "C3'" O7 SING N N 29 O05 O2A PA DOUB N N 30 O05 PA O1A SING N N 31 O05 PA C3 SING N N 32 O05 C3 PB SING N N 33 O05 O1B PB DOUB N N 34 O05 PB O3B SING N N 35 O05 PB O2B SING N N 36 O05 C3 H19 SING N N 37 O05 C3 H18 SING N N 38 O05 C8 H15 SING N N 39 O05 C9 H13 SING N N 40 O05 C9 H14 SING N N 41 O05 C10 H11 SING N N 42 O05 C10 H12 SING N N 43 O05 C11 H9 SING N N 44 O05 C11 H8 SING N N 45 O05 C12 H7 SING N N 46 O05 C12 H6 SING N N 47 O05 O1A H20 SING N N 48 O05 O3B H21 SING N N 49 O05 O2B H22 SING N N 50 O05 "C5'" H16 SING N N 51 O05 "C5'" H17 SING N N 52 O05 "C4'" H1 SING N N 53 O05 "C3'" H2 SING N N 54 O05 O7 H23 SING N N 55 O05 "C2'" H3 SING N N 56 O05 O8 H24 SING N N 57 O05 "C1'" H SING N N 58 O05 N6 H5 SING N N 59 O05 N6 H4 SING N N 60 O05 N4 H10 SING N N 61 O05 N4 H25 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 O05 InChI InChI 1.03 "InChI=1S/C15H25N7O9P2/c16-12-9-13(20-15(19-12)21-3-1-17-2-4-21)22(6-18-9)14-11(24)10(23)8(31-14)5-30-33(28,29)7-32(25,26)27/h6,8,10-11,14,17,23-24H,1-5,7H2,(H,28,29)(H2,16,19,20)(H2,25,26,27)/p+1/t8-,10-,11-,14-/m1/s1" O05 InChIKey InChI 1.03 GUHCLCYLXMLIOC-IDTAVKCVSA-O O05 SMILES_CANONICAL CACTVS 3.385 "Nc1nc(nc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)C[P](O)(O)=O)[C@@H](O)[C@H]3O)N4CC[NH2+]CC4" O05 SMILES CACTVS 3.385 "Nc1nc(nc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)C[P](O)(O)=O)[CH](O)[CH]3O)N4CC[NH2+]CC4" O05 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc2c(nc(nc2n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(CP(=O)(O)O)O)O)O)N4CC[NH2+]CC4)N" O05 SMILES "OpenEye OEToolkits" 2.0.7 "c1nc2c(nc(nc2n1C3C(C(C(O3)COP(=O)(CP(=O)(O)O)O)O)O)N4CC[NH2+]CC4)N" # _pdbx_chem_comp_identifier.comp_id O05 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-azanyl-2-piperazin-4-ium-1-yl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl]methylphosphonic acid" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site O05 "Create component" 2020-01-13 PDBE O05 "Initial release" 2020-02-19 RCSB ##