data_RDO # _chem_comp.id RDO _chem_comp.name "ethyl 4-oxidanylidene-4-[4-(trifluoromethyl)-2,3-dihydroindol-1-yl]butanoate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H16 F3 N O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ;(2R,3S,4R,5R,6R)-6-((1R,2R,3S,4R,6S)-4,6-DIAMINO-2,3-DIHYDROXYCYCLOHEXYLOXY)-5-AMINO-2-(AMINOMETHYL)-TETRAHYDRO-2H-PYRA N-3,4-DIOL; NEOMYCIN A; NEAMINE; (1R,2R,3S,4R,6S)-4,6-diamino-2,3-dihydroxycyclohexyl 2,6-diamino-2,6-dideoxy-alpha-D-glucoside; (1R,2R,3S,4R,6S)-4,6-diamino-2,3-dihydroxycyclohexyl 2,6-diamino-2,6-dideoxy-D-glucoside; (1R,2R,3S,4R,6S)-4,6-diamino-2,3-dihydroxycyclohexyl 2,6-diamino-2,6-dideoxy-glucoside ; _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-11-29 _chem_comp.pdbx_modified_date 2022-12-09 _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 315.288 _chem_comp.one_letter_code ? _chem_comp.three_letter_code RDO _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 8BSQ _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 RDO C07 C1 C 0 1 N N N 23.262 -4.553 -6.063 2.383 -0.312 0.000 C07 RDO 1 RDO C08 C2 C 0 1 N N N 24.694 -4.243 -5.640 1.150 0.554 -0.001 C08 RDO 2 RDO C11 C3 C 0 1 N N N 25.623 -6.495 -6.502 -0.329 -1.455 0.001 C11 RDO 3 RDO C12 C4 C 0 1 N N N 27.008 -7.063 -6.634 -1.861 -1.592 0.001 C12 RDO 4 RDO C13 C5 C 0 1 Y N N 27.941 -6.090 -5.905 -2.370 -0.169 0.000 C13 RDO 5 RDO C14 C6 C 0 1 Y N N 27.189 -4.990 -5.488 -1.282 0.689 -0.001 C14 RDO 6 RDO C15 C7 C 0 1 Y N N 27.801 -3.944 -4.770 -1.505 2.067 -0.002 C15 RDO 7 RDO C16 C8 C 0 1 Y N N 29.164 -3.987 -4.494 -2.792 2.563 -0.002 C16 RDO 8 RDO C17 C9 C 0 1 Y N N 29.920 -5.083 -4.919 -3.871 1.699 -0.001 C17 RDO 9 RDO C18 C10 C 0 1 Y N N 29.317 -6.129 -5.613 -3.658 0.333 0.000 C18 RDO 10 RDO C19 C11 C 0 1 N N N 30.234 -7.259 -6.040 -4.832 -0.611 0.001 C19 RDO 11 RDO F20 F1 F 0 1 N N N 30.856 -6.810 -7.158 -4.783 -1.418 -1.141 F20 RDO 12 RDO F21 F2 F 0 1 N N N 29.608 -8.431 -6.353 -4.782 -1.417 1.143 F21 RDO 13 RDO F22 F3 F 0 1 N N N 31.149 -7.443 -5.048 -6.022 0.124 0.001 F22 RDO 14 RDO N10 N1 N 0 1 N N N 25.765 -5.192 -5.879 -0.073 -0.013 -0.000 N10 RDO 15 RDO O09 O1 O 0 1 N N N 24.934 -3.212 -5.122 1.258 1.763 -0.001 O09 RDO 16 RDO H1 H1 H 0 1 N N N 23.275 -4.210 -7.108 2.384 -0.941 0.890 H1 RDO 17 RDO H2 H2 H 0 1 N N N 23.272 -5.653 -6.038 2.384 -0.942 -0.890 H2 RDO 18 RDO H4 H4 H 0 1 N N N 25.159 -6.392 -7.494 0.091 -1.913 0.896 H4 RDO 19 RDO H5 H5 H 0 1 N N N 27.057 -8.059 -6.170 -2.196 -2.117 -0.894 H5 RDO 20 RDO H6 H6 H 0 1 N N N 27.210 -3.105 -4.432 -0.667 2.748 -0.002 H6 RDO 21 RDO H7 H7 H 0 1 N N N 29.635 -3.178 -3.955 -2.957 3.631 -0.003 H7 RDO 22 RDO H8 H8 H 0 1 N N N 30.979 -5.119 -4.708 -4.878 2.090 -0.001 H8 RDO 23 RDO C06 C12 C 0 1 N N N ? ? ? 3.630 0.574 -0.000 C06 RDO 24 RDO C04 C13 C 0 1 N N N ? ? ? 4.862 -0.293 0.000 C04 RDO 25 RDO O03 O2 O 0 1 N N N ? ? ? 6.080 0.272 -0.000 O03 RDO 26 RDO C02 C14 C 0 1 N N N ? ? ? 7.222 -0.624 0.001 C02 RDO 27 RDO O05 O3 O 0 1 N N N ? ? ? 4.755 -1.496 0.001 O05 RDO 28 RDO C01 C15 C 0 1 N N N ? ? ? 8.514 0.196 0.000 C01 RDO 29 RDO H3 H3 H 0 1 N N N ? ? ? 3.628 1.203 -0.891 H3 RDO 30 RDO H9 H9 H 0 1 N N N ? ? ? 3.628 1.204 0.889 H9 RDO 31 RDO H10 H10 H 0 1 N N N ? ? ? 7.191 -1.252 0.891 H10 RDO 32 RDO H11 H11 H 0 1 N N N ? ? ? 7.191 -1.253 -0.889 H11 RDO 33 RDO H12 H12 H 0 1 N N N ? ? ? 9.372 -0.477 0.001 H12 RDO 34 RDO H13 H13 H 0 1 N N N ? ? ? 8.545 0.824 -0.890 H13 RDO 35 RDO H14 H14 H 0 1 N N N ? ? ? 8.545 0.825 0.890 H14 RDO 36 RDO H15 H15 H 0 1 N N N 25.003 -7.150 -5.873 0.093 -1.915 -0.893 H15 RDO 37 RDO H16 H16 H 0 1 N N N 27.290 -7.139 -7.695 -2.195 -2.115 0.897 H16 RDO 38 # 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 RDO F20 C19 SING N N 1 RDO C12 C11 SING N N 2 RDO C12 C13 SING N N 3 RDO C11 N10 SING N N 4 RDO F21 C19 SING N N 5 RDO C07 C08 SING N N 6 RDO C19 C18 SING N N 7 RDO C19 F22 SING N N 8 RDO C13 C18 DOUB Y N 9 RDO C13 C14 SING Y N 10 RDO N10 C08 SING N N 11 RDO N10 C14 SING N N 12 RDO C08 O09 DOUB N N 13 RDO C18 C17 SING Y N 14 RDO C14 C15 DOUB Y N 15 RDO C17 C16 DOUB Y N 16 RDO C15 C16 SING Y N 17 RDO C07 H1 SING N N 18 RDO C07 H2 SING N N 19 RDO C11 H4 SING N N 20 RDO C12 H5 SING N N 21 RDO C15 H6 SING N N 22 RDO C16 H7 SING N N 23 RDO C17 H8 SING N N 24 RDO C07 C06 SING N N 25 RDO C06 C04 SING N N 26 RDO C04 O03 SING N N 27 RDO O03 C02 SING N N 28 RDO C04 O05 DOUB N N 29 RDO C02 C01 SING N N 30 RDO C06 H3 SING N N 31 RDO C06 H9 SING N N 32 RDO C02 H10 SING N N 33 RDO C02 H11 SING N N 34 RDO C01 H12 SING N N 35 RDO C01 H13 SING N N 36 RDO C01 H14 SING N N 37 RDO C11 H15 SING N N 38 RDO C12 H16 SING N N 39 # 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 RDO InChI InChI 1.06 "InChI=1S/C15H16F3NO3/c1-2-22-14(21)7-6-13(20)19-9-8-10-11(15(16,17)18)4-3-5-12(10)19/h3-5H,2,6-9H2,1H3" RDO InChIKey InChI 1.06 ZUBJCDWADSBMLA-UHFFFAOYSA-N RDO SMILES_CANONICAL CACTVS 3.385 "CCOC(=O)CCC(=O)N1CCc2c1cccc2C(F)(F)F" RDO SMILES CACTVS 3.385 "CCOC(=O)CCC(=O)N1CCc2c1cccc2C(F)(F)F" RDO SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CCOC(=O)CCC(=O)N1CCc2c1cccc2C(F)(F)F" RDO SMILES "OpenEye OEToolkits" 3.1.0.0 "CCOC(=O)CCC(=O)N1CCc2c1cccc2C(F)(F)F" # _pdbx_chem_comp_identifier.comp_id RDO _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 3.1.0.0 _pdbx_chem_comp_identifier.identifier "ethyl 4-oxidanylidene-4-[4-(trifluoromethyl)-2,3-dihydroindol-1-yl]butanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site RDO "Create component" 2022-11-29 PDBE RDO "Initial release" 2022-12-14 RCSB #