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      ? 
# 
