data_A1D9T # _chem_comp.id A1D9T _chem_comp.name "methyl (~{E})-4-[[(3~{R})-1,1-bis(oxidanylidene)thiolan-3-yl]amino]-4-oxidanylidene-but-2-enoate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C9 H13 N O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-07-09 _chem_comp.pdbx_modified_date 2026-01-16 _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 247.268 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D9T _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 9INN _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC _chem_comp.pdbx_pcm Y # 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 A1D9T C4 C1 C 0 1 N N N N N N 9.405 -6.929 24.926 -2.220 0.330 0.001 C4 A1D9T 1 A1D9T C5 C2 C 0 1 N N N N N N 8.543 -7.981 25.617 -3.318 -0.432 -0.124 C5 A1D9T 2 A1D9T C6 C3 C 0 1 N N N N N N 8.248 -9.241 24.849 -4.656 0.176 0.002 C6 A1D9T 3 A1D9T C7 C4 C 0 1 N N N N N N 10.299 -10.379 24.643 -7.042 0.076 0.012 C7 A1D9T 4 A1D9T C8 C5 C 0 1 N N R N N N 8.883 -4.215 27.575 1.551 -0.115 -0.136 C8 A1D9T 5 A1D9T C9 C6 C 0 1 N N N N N N 10.096 -4.097 28.504 2.579 0.957 -0.579 C9 A1D9T 6 A1D9T C10 C7 C 0 1 N N N N N N 9.200 -1.749 27.604 3.534 -0.956 1.140 C10 A1D9T 7 A1D9T C11 C8 C 0 1 N N N N N N 8.903 -2.941 26.710 2.026 -0.644 1.228 C11 A1D9T 8 A1D9T C12 C9 C 0 1 N N N N N N 9.736 -5.729 25.804 -0.880 -0.278 -0.131 C12 A1D9T 9 A1D9T N2 N1 N 0 1 N N N N N N 8.875 -5.442 26.789 0.222 0.487 -0.005 N2 A1D9T 10 A1D9T O2 O1 O 0 1 N N N N N N 10.749 -5.093 25.570 -0.772 -1.468 -0.352 O2 A1D9T 11 A1D9T O3 O2 O 0 1 N N N N N N 7.232 -9.879 24.936 -4.764 1.366 0.218 O3 A1D9T 12 A1D9T O4 O3 O 0 1 N N N N N N 9.238 -9.603 24.045 -5.758 -0.589 -0.123 O4 A1D9T 13 A1D9T O5 O4 O 0 1 N N N N N N 11.534 -1.897 28.811 5.022 1.148 0.471 O5 A1D9T 14 A1D9T O6 O5 O 0 1 N N N N N N 9.515 -2.128 30.177 4.655 -0.577 -1.245 O6 A1D9T 15 A1D9T S2 S1 S 0 1 N N N N N N 10.184 -2.363 28.933 4.180 0.180 -0.140 S2 A1D9T 16 A1D9T H5 H1 H 0 1 N N N N N N 9.749 -7.026 23.907 -2.316 1.388 0.194 H5 A1D9T 17 A1D9T H6 H2 H 0 1 N N N N N N 8.161 -7.828 26.615 -3.222 -1.491 -0.316 H6 A1D9T 18 A1D9T H7 H3 H 0 1 N N N N N N 11.055 -10.616 23.880 -7.112 0.532 1.000 H7 A1D9T 19 A1D9T H8 H4 H 0 1 N N N N N N 10.765 -9.799 25.454 -7.133 0.849 -0.752 H8 A1D9T 20 A1D9T H9 H5 H 0 1 N N N N N N 9.885 -11.313 25.051 -7.843 -0.652 -0.110 H9 A1D9T 21 A1D9T H10 H6 H 0 1 N N N N N N 7.976 -4.185 28.197 1.522 -0.928 -0.863 H10 A1D9T 22 A1D9T H11 H7 H 0 1 N N N N N N 9.954 -4.711 29.405 2.516 1.133 -1.653 H11 A1D9T 23 A1D9T H12 H8 H 0 1 N N N N N N 11.013 -4.414 27.985 2.434 1.884 -0.025 H12 A1D9T 24 A1D9T H2 H9 H 0 1 N N N N N N 9.753 -0.981 27.044 4.017 -0.761 2.097 H2 A1D9T 25 A1D9T H1 H10 H 0 1 N N N N N N 8.264 -1.319 27.990 3.689 -1.992 0.840 H1 A1D9T 26 A1D9T H4 H11 H 0 1 N N N N N N 7.924 -2.806 26.227 1.853 0.111 1.995 H4 A1D9T 27 A1D9T H3 H12 H 0 1 N N N N N N 9.683 -3.029 25.939 1.479 -1.552 1.480 H3 A1D9T 28 A1D9T H13 H13 H 0 1 N N N N N N 8.173 -6.122 27.001 0.136 1.437 0.171 H13 A1D9T 29 # 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 A1D9T C10 C11 SING N N 1 A1D9T C10 S2 SING N N 2 A1D9T C11 C8 SING N N 3 A1D9T C12 N2 SING N N 4 A1D9T C12 C4 SING N N 5 A1D9T C12 O2 DOUB N N 6 A1D9T C4 C5 DOUB N E 7 A1D9T C5 C6 SING N N 8 A1D9T C6 O4 SING N N 9 A1D9T C6 O3 DOUB N N 10 A1D9T C7 O4 SING N N 11 A1D9T C8 N2 SING N N 12 A1D9T C8 C9 SING N N 13 A1D9T C9 S2 SING N N 14 A1D9T O5 S2 DOUB N N 15 A1D9T O6 S2 DOUB N N 16 A1D9T C4 H5 SING N N 17 A1D9T C5 H6 SING N N 18 A1D9T C7 H7 SING N N 19 A1D9T C7 H8 SING N N 20 A1D9T C7 H9 SING N N 21 A1D9T C8 H10 SING N N 22 A1D9T C9 H11 SING N N 23 A1D9T C9 H12 SING N N 24 A1D9T C10 H2 SING N N 25 A1D9T C10 H1 SING N N 26 A1D9T C11 H4 SING N N 27 A1D9T C11 H3 SING N N 28 A1D9T N2 H13 SING N N 29 # 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 A1D9T InChI InChI 1.06 "InChI=1S/C9H13NO5S/c1-15-9(12)3-2-8(11)10-7-4-5-16(13,14)6-7/h2-3,7H,4-6H2,1H3,(H,10,11)/b3-2-" A1D9T InChIKey InChI 1.06 QELSDPDIUZGTDI-IHWYPQMZSA-N A1D9T SMILES_CANONICAL CACTVS 3.385 "COC(=O)/C=C/C(=O)N[C@@H]1CC[S](=O)(=O)C1" A1D9T SMILES CACTVS 3.385 "COC(=O)C=CC(=O)N[CH]1CC[S](=O)(=O)C1" A1D9T SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "COC(=O)/C=C/C(=O)N[C@@H]1CCS(=O)(=O)C1" A1D9T SMILES "OpenEye OEToolkits" 2.0.7 "COC(=O)C=CC(=O)NC1CCS(=O)(=O)C1" # _pdbx_chem_comp_identifier.comp_id A1D9T _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 "methyl (~{E})-4-[[(3~{R})-1,1-bis(oxidanylidene)thiolan-3-yl]amino]-4-oxidanylidene-but-2-enoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1D9T "Create component" 2024-07-09 PDBC A1D9T "Modify PCM" 2024-09-27 PDBE A1D9T "Initial release" 2026-01-21 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1D9T _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C4 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #