data_YDO # _chem_comp.id YDO _chem_comp.name "5'-deoxy-5'-(ethylsulfamamido)adenosine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C12 H19 N7 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-12-01 _chem_comp.pdbx_modified_date 2023-12-08 _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 373.388 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YDO _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 8V5G _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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 YDO N1 N1 N 0 1 N N N N N N 22.885 -32.016 15.822 -6.039 2.716 -0.306 N1 YDO 1 YDO N3 N2 N 0 1 N N N N N N 18.689 -30.242 21.757 3.070 -0.242 0.752 N3 YDO 2 YDO C4 C1 C 0 1 N N R N N N 21.592 -32.789 21.644 -1.191 -0.895 0.266 C4 YDO 3 YDO C5 C2 C 0 1 N N R N N N 22.276 -31.857 22.642 -1.135 -1.880 -0.922 C5 YDO 4 YDO C6 C3 C 0 1 N N S N N N 21.135 -30.919 23.035 0.364 -2.237 -1.043 C6 YDO 5 YDO C7 C4 C 0 1 N N R N N N 19.948 -31.872 23.039 1.035 -1.425 0.087 C7 YDO 6 YDO C8 C5 C 0 1 N N N N N N 18.608 -31.227 22.835 2.400 -0.905 -0.369 C8 YDO 7 YDO C10 C6 C 0 1 N N N N N N 21.032 -26.677 20.756 4.976 3.453 -1.471 C10 YDO 8 YDO C1 C7 C 0 1 Y N N N N N 22.805 -32.721 16.947 -5.443 1.532 0.092 C1 YDO 9 YDO C11 C8 C 0 1 Y N N N N N 21.523 -31.076 19.769 -1.951 1.362 -0.571 C11 YDO 10 YDO C12 C9 C 0 1 Y N N N N N 23.177 -34.765 18.044 -5.598 -0.561 1.052 C12 YDO 11 YDO C2 C10 C 0 1 Y N N N N N 22.311 -32.194 18.151 -4.068 1.317 -0.104 C2 YDO 12 YDO C3 C11 C 0 1 Y N N N N N 22.293 -33.045 19.228 -3.520 0.095 0.321 C3 YDO 13 YDO C9 C12 C 0 1 N N N N N N 20.073 -27.807 20.737 4.337 2.534 -0.427 C9 YDO 14 YDO N2 N3 N 0 1 Y N N N N N 21.781 -32.324 20.274 -2.184 0.152 0.013 N2 YDO 15 YDO N4 N4 N 0 1 N N N N N N 19.035 -27.655 21.750 4.906 1.190 -0.547 N4 YDO 16 YDO N5 N5 N 0 1 Y N N N N N 21.821 -30.948 18.502 -3.057 2.043 -0.639 N5 YDO 17 YDO N6 N6 N 0 1 Y N N N N N 22.714 -34.313 19.202 -4.315 -0.806 0.888 N6 YDO 18 YDO N7 N7 N 0 1 Y N N N N N 23.231 -34.010 16.937 -6.157 0.574 0.674 N7 YDO 19 YDO O1 O1 O 0 1 N N N N N N 22.740 -32.594 23.747 -1.906 -3.049 -0.640 O1 YDO 20 YDO O2 O2 O 0 1 N N N N N N 21.340 -30.348 24.319 0.563 -3.637 -0.839 O2 YDO 21 YDO O3 O3 O 0 1 N N N N N N 16.973 -28.726 20.919 5.026 0.755 1.880 O3 YDO 22 YDO O4 O4 O 0 1 N N N N N N 17.535 -28.755 23.315 5.323 -1.111 0.244 O4 YDO 23 YDO O5 O5 O 0 1 N N N N N N 20.204 -32.784 21.953 0.134 -0.324 0.336 O5 YDO 24 YDO S1 S1 S 0 1 N N N N N N 17.943 -28.830 21.954 4.691 0.088 0.671 S1 YDO 25 YDO H1 H1 H 0 1 N N N N N N 23.273 -32.586 15.098 -5.506 3.410 -0.726 H1 YDO 26 YDO H2 H2 H 0 1 N N N N N N 21.971 -31.712 15.554 -6.989 2.851 -0.169 H2 YDO 27 YDO H3 H3 H 0 1 N N N N N N 18.305 -30.668 20.938 2.564 0.005 1.542 H3 YDO 28 YDO H4 H4 H 0 1 N N N N N N 22.007 -33.801 21.757 -1.425 -1.426 1.189 H4 YDO 29 YDO H5 H5 H 0 1 N N N N N N 23.082 -31.294 22.150 -1.487 -1.399 -1.834 H5 YDO 30 YDO H6 H6 H 0 1 N N N N N N 20.999 -30.147 22.264 0.752 -1.932 -2.015 H6 YDO 31 YDO H7 H7 H 0 1 N N N N N N 19.939 -32.421 23.992 1.143 -2.037 0.982 H7 YDO 32 YDO H8 H8 H 0 1 N N N N N N 18.299 -30.726 23.764 2.264 -0.194 -1.184 H8 YDO 33 YDO H9 H9 H 0 1 N N N N N N 17.869 -31.997 22.570 3.010 -1.740 -0.714 H9 YDO 34 YDO H10 H10 H 0 1 N N N N N N 21.796 -26.830 19.979 6.052 3.498 -1.305 H10 YDO 35 YDO H11 H11 H 0 1 N N N N N N 20.495 -25.737 20.561 4.777 3.062 -2.469 H11 YDO 36 YDO H12 H12 H 0 1 N N N N N N 21.517 -26.625 21.742 4.552 4.454 -1.382 H12 YDO 37 YDO H13 H13 H 0 1 N N N N N N 21.112 -30.273 20.362 -0.990 1.703 -0.926 H13 YDO 38 YDO H14 H14 H 0 1 N N N N N N 23.526 -35.786 17.990 -6.216 -1.315 1.516 H14 YDO 39 YDO H15 H15 H 0 1 N N N N N N 19.599 -27.854 19.746 4.536 2.925 0.571 H15 YDO 40 YDO H16 H16 H 0 1 N N N N N N 20.621 -28.742 20.926 3.261 2.489 -0.592 H16 YDO 41 YDO H17 H17 H 0 1 N N N N N N 19.500 -27.535 22.627 5.410 0.945 -1.339 H17 YDO 42 YDO H18 H18 H 0 1 N N N N N N 23.164 -32.008 24.363 -1.906 -3.702 -1.353 H18 YDO 43 YDO H19 H19 H 0 1 N N N N N N 20.614 -29.773 24.530 0.112 -4.197 -1.486 H19 YDO 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 YDO N1 C1 SING N N 1 YDO N7 C1 DOUB Y N 2 YDO N7 C12 SING Y N 3 YDO C1 C2 SING Y N 4 YDO C12 N6 DOUB Y N 5 YDO C2 N5 SING Y N 6 YDO C2 C3 DOUB Y N 7 YDO N5 C11 DOUB Y N 8 YDO N6 C3 SING Y N 9 YDO C3 N2 SING Y N 10 YDO C11 N2 SING Y N 11 YDO N2 C4 SING N N 12 YDO C9 C10 SING N N 13 YDO C9 N4 SING N N 14 YDO O3 S1 DOUB N N 15 YDO C4 O5 SING N N 16 YDO C4 C5 SING N N 17 YDO N4 S1 SING N N 18 YDO N3 S1 SING N N 19 YDO N3 C8 SING N N 20 YDO O5 C7 SING N N 21 YDO S1 O4 DOUB N N 22 YDO C5 C6 SING N N 23 YDO C5 O1 SING N N 24 YDO C8 C7 SING N N 25 YDO C6 C7 SING N N 26 YDO C6 O2 SING N N 27 YDO N1 H1 SING N N 28 YDO N1 H2 SING N N 29 YDO N3 H3 SING N N 30 YDO C4 H4 SING N N 31 YDO C5 H5 SING N N 32 YDO C6 H6 SING N N 33 YDO C7 H7 SING N N 34 YDO C8 H8 SING N N 35 YDO C8 H9 SING N N 36 YDO C10 H10 SING N N 37 YDO C10 H11 SING N N 38 YDO C10 H12 SING N N 39 YDO C11 H13 SING N N 40 YDO C12 H14 SING N N 41 YDO C9 H15 SING N N 42 YDO C9 H16 SING N N 43 YDO N4 H17 SING N N 44 YDO O1 H18 SING N N 45 YDO O2 H19 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 YDO SMILES ACDLabs 12.01 "CCNS(=O)(=O)NCC1OC(n2cnc3c(N)ncnc32)C(O)C1O" YDO InChI InChI 1.06 "InChI=1S/C12H19N7O5S/c1-2-17-25(22,23)18-3-6-8(20)9(21)12(24-6)19-5-16-7-10(13)14-4-15-11(7)19/h4-6,8-9,12,17-18,20-21H,2-3H2,1H3,(H2,13,14,15)/t6-,8-,9-,12-/m1/s1" YDO InChIKey InChI 1.06 YOSUWZOUTJPARI-WOUKDFQISA-N YDO SMILES_CANONICAL CACTVS 3.385 "CCN[S](=O)(=O)NC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23" YDO SMILES CACTVS 3.385 "CCN[S](=O)(=O)NC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23" YDO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCNS(=O)(=O)NC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O" YDO SMILES "OpenEye OEToolkits" 2.0.7 "CCNS(=O)(=O)NCC1C(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 YDO "SYSTEMATIC NAME" ACDLabs 12.01 "5'-deoxy-5'-(ethylsulfamamido)adenosine" YDO "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[(ethylsulfamoylamino)methyl]oxolane-3,4-diol" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YDO "Create component" 2023-12-01 RCSB YDO "Initial release" 2023-12-13 RCSB #