data_XR9 # _chem_comp.id XR9 _chem_comp.name "(9S)-7-oxidanyl-8-oxa-7-boranuidabicyclo[4.3.0]nona-1,3,5-triene-9-carbonitrile" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C8 H6 B N O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge -1 _chem_comp.pdbx_initial_date 2023-11-08 _chem_comp.pdbx_modified_date 2024-11-15 _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 158.950 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XR9 _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 Y _chem_comp.pdbx_model_coordinates_db_code 8R2Z _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _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.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 _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag XR9 C12 C1 C 0 1 Y N N -6.198 -1.314 12.611 ? ? ? C12 XR9 1 N N N XR9 C11 C2 C 0 1 Y N N -5.351 -0.247 12.939 ? ? ? C11 XR9 2 N N N XR9 C9 C3 C 0 1 Y N N -6.609 1.246 11.544 ? ? ? C9 XR9 3 N N N XR9 C7 C4 C 0 1 Y N N -7.252 -1.058 11.735 ? ? ? C7 XR9 4 N N N XR9 C4 C5 C 0 1 N N S -8.062 -2.302 11.451 ? ? ? C4 XR9 5 N N N XR9 N6 N1 N 0 1 N N N -7.948 -2.837 8.888 ? ? ? N6 XR9 6 N N N XR9 B2 B1 B -1 1 N N N -6.258 -2.826 12.980 ? ? ? B2 XR9 7 N N N XR9 C10 C6 C 0 1 Y N N -5.553 1.017 12.411 ? ? ? C10 XR9 8 N N N XR9 C5 C7 C 0 1 N N N -7.983 -2.621 10.007 ? ? ? C5 XR9 9 N N N XR9 C8 C8 C 0 1 Y N N -7.464 0.209 11.201 ? ? ? C8 XR9 10 N N N XR9 O1 O1 O 0 1 N N N -5.025 -3.538 12.590 ? ? ? O1 XR9 11 N N N XR9 O3 O2 O 0 1 N N N -7.440 -3.328 12.210 ? ? ? O3 XR9 12 N N N XR9 H11 H1 H 0 1 N N N -4.526 -0.413 13.616 ? ? ? H11 XR9 13 N N N XR9 H9 H2 H 0 1 N N N -6.767 2.233 11.135 ? ? ? H9 XR9 14 N N N XR9 H4 H3 H 0 1 N N N -9.108 -2.151 11.757 ? ? ? H4 XR9 15 N N N XR9 H10 H4 H 0 1 N N N -4.887 1.825 12.675 ? ? ? H10 XR9 16 N N N XR9 H8 H5 H 0 1 N N N -8.288 0.384 10.525 ? ? ? H8 XR9 17 N N N XR9 H1 H6 H 0 1 N N N -5.228 -4.181 11.920 ? ? ? H1 XR9 18 N N N # 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 XR9 O1 B2 SING N N 1 XR9 B2 O3 SING N N 2 XR9 O3 C4 SING N N 3 XR9 C4 C5 SING N N 4 XR9 C5 N6 TRIP N N 5 XR9 C4 C7 SING N N 6 XR9 C7 C8 DOUB Y N 7 XR9 C8 C9 SING Y N 8 XR9 C9 C10 DOUB Y N 9 XR9 C10 C11 SING Y N 10 XR9 C11 C12 DOUB Y N 11 XR9 C12 B2 SING N N 12 XR9 C12 C7 SING Y N 13 XR9 C11 H11 SING N N 14 XR9 C9 H9 SING N N 15 XR9 C4 H4 SING N N 16 XR9 C10 H10 SING N N 17 XR9 C8 H8 SING N N 18 XR9 O1 H1 SING N N 19 # 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 XR9 InChI InChI 1.06 "InChI=1S/C8H7BNO2/c10-5-8-6-3-1-2-4-7(6)9(11)12-8/h1-4,8-9,11H/q-1/t8-,9-/m1/s1" XR9 InChIKey InChI 1.06 MIKWUCWNKLNUEG-RKDXNWHRSA-N XR9 SMILES_CANONICAL CACTVS 3.385 "O[B-]1O[C@H](C#N)c2ccccc12" XR9 SMILES CACTVS 3.385 "O[B-]1O[CH](C#N)c2ccccc12" XR9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[B-]1(c2ccccc2[C@H](O1)C#N)O" XR9 SMILES "OpenEye OEToolkits" 2.0.7 "[B-]1(c2ccccc2C(O1)C#N)O" # _pdbx_chem_comp_identifier.comp_id XR9 _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 "(9~{S})-7-oxidanyl-8-oxa-7-boranuidabicyclo[4.3.0]nona-1,3,5-triene-9-carbonitrile" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XR9 "Create component" 2023-11-08 PDBE XR9 "Modify charge" 2023-11-12 PDBE XR9 "Modify PCM" 2024-09-27 PDBE XR9 "Initial release" 2024-11-20 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id XR9 _pdbx_chem_comp_pcm.modified_residue_id SER _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 B2 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom OG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #