data_6Y3
# 
_chem_comp.id                                    6Y3 
_chem_comp.name                                  "~{N}-(4-aminophenyl)-2-selanyl-benzamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C13 H12 N2 O Se" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "amino-ebselen (open form)" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-07-21 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        291.207 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     6Y3 
_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        5KWJ 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_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_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_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 
6Y3 C10  C1  C  0 1 Y N N N N N 103.152 103.498 197.712 3.990  2.057  0.028  C10  6Y3 1  
6Y3 SE07 SE1 SE 0 0 N N N N N N 103.449 107.668 197.319 2.256  -1.775 -0.105 SE07 6Y3 2  
6Y3 C08  C2  C  0 1 Y N N N N N 103.462 105.859 198.082 2.524  0.165  -0.008 C08  6Y3 3  
6Y3 C09  C3  C  0 1 Y N N N N N 103.167 104.797 197.234 3.800  0.689  -0.035 C09  6Y3 4  
6Y3 C11  C4  C  0 1 Y N N N N N 103.426 103.254 199.054 2.904  2.910  0.118  C11  6Y3 5  
6Y3 C12  C5  C  0 1 Y N N N N N 103.715 104.307 199.910 1.623  2.400  0.140  C12  6Y3 6  
6Y3 C13  C6  C  0 1 Y N N N N N 103.728 105.612 199.431 1.424  1.020  0.072  C13  6Y3 7  
6Y3 C14  C7  C  0 1 N N N N N N 104.069 106.756 200.399 0.054  0.465  0.101  C14  6Y3 8  
6Y3 N15  N1  N  0 1 N N N N N N 104.088 106.532 201.837 -1.007 1.293  0.177  N15  6Y3 9  
6Y3 C16  C8  C  0 1 Y N N N N N 104.419 107.568 202.818 -2.306 0.775  0.107  C16  6Y3 10 
6Y3 C17  C9  C  0 1 Y N N N N N 104.326 108.923 202.524 -3.309 1.498  -0.527 C17  6Y3 11 
6Y3 C18  C10 C  0 1 Y N N N N N 104.647 109.887 203.475 -4.589 0.988  -0.597 C18  6Y3 12 
6Y3 C19  C11 C  0 1 Y N N N N N 105.065 109.516 204.741 -4.876 -0.249 -0.032 C19  6Y3 13 
6Y3 N20  N2  N  0 1 N N N N N N 105.391 110.551 205.730 -6.174 -0.766 -0.103 N20  6Y3 14 
6Y3 C21  C12 C  0 1 Y N N N N N 105.158 108.162 205.042 -3.873 -0.972 0.602  C21  6Y3 15 
6Y3 C22  C13 C  0 1 Y N N N N N 104.842 107.194 204.089 -2.592 -0.463 0.666  C22  6Y3 16 
6Y3 O23  O1  O  0 1 N N N N N N 104.351 107.819 199.959 -0.116 -0.738 0.055  O23  6Y3 17 
6Y3 H1   H1  H  0 1 N N N N N N 102.929 102.678 197.046 4.992  2.462  0.011  H1   6Y3 18 
6Y3 H2   H2  H  0 1 N N N N N N 103.780 108.638 198.359 2.170  -1.986 -1.649 H2   6Y3 19 
6Y3 H3   H3  H  0 1 N N N N N N 102.948 104.987 196.194 4.652  0.029  -0.106 H3   6Y3 20 
6Y3 H4   H4  H  0 1 N N N N N N 103.414 102.242 199.431 3.060  3.977  0.171  H4   6Y3 21 
6Y3 H5   H5  H  0 1 N N N N N N 103.930 104.112 200.950 0.776  3.066  0.211  H5   6Y3 22 
6Y3 H6   H6  H  0 1 N N N N N N 103.862 105.618 202.175 -0.870 2.248  0.281  H6   6Y3 23 
6Y3 H7   H7  H  0 1 N N N N N N 104.000 109.233 201.542 -3.086 2.459  -0.966 H7   6Y3 24 
6Y3 H8   H8  H  0 1 N N N N N N 104.569 110.934 203.223 -5.369 1.550  -1.089 H8   6Y3 25 
6Y3 H9   H9  H  0 1 N N N N N N 105.674 110.118 206.586 -6.873 -0.262 -0.546 H9   6Y3 26 
6Y3 H10  H10 H  0 1 N N N N N N 106.136 111.121 205.383 -6.373 -1.630 0.291  H10  6Y3 27 
6Y3 H11  H11 H  0 1 N N N N N N 105.479 107.856 206.027 -4.096 -1.933 1.041  H11  6Y3 28 
6Y3 H12  H12 H  0 1 N N N N N N 104.926 106.147 204.340 -1.811 -1.027 1.156  H12  6Y3 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 
6Y3 C09  C10 DOUB Y N 1  
6Y3 C09  C08 SING Y N 2  
6Y3 SE07 C08 SING N N 3  
6Y3 C10  C11 SING Y N 4  
6Y3 C08  C13 DOUB Y N 5  
6Y3 C11  C12 DOUB Y N 6  
6Y3 C13  C12 SING Y N 7  
6Y3 C13  C14 SING N N 8  
6Y3 O23  C14 DOUB N N 9  
6Y3 C14  N15 SING N N 10 
6Y3 N15  C16 SING N N 11 
6Y3 C17  C16 DOUB Y N 12 
6Y3 C17  C18 SING Y N 13 
6Y3 C16  C22 SING Y N 14 
6Y3 C18  C19 DOUB Y N 15 
6Y3 C22  C21 DOUB Y N 16 
6Y3 C19  C21 SING Y N 17 
6Y3 C19  N20 SING N N 18 
6Y3 C10  H1  SING N N 19 
6Y3 SE07 H2  SING N N 20 
6Y3 C09  H3  SING N N 21 
6Y3 C11  H4  SING N N 22 
6Y3 C12  H5  SING N N 23 
6Y3 N15  H6  SING N N 24 
6Y3 C17  H7  SING N N 25 
6Y3 C18  H8  SING N N 26 
6Y3 N20  H9  SING N N 27 
6Y3 N20  H10 SING N N 28 
6Y3 C21  H11 SING N N 29 
6Y3 C22  H12 SING N N 30 
# 
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 
6Y3 InChI            InChI                1.03  "InChI=1S/C13H12N2OSe/c14-9-5-7-10(8-6-9)15-13(16)11-3-1-2-4-12(11)17/h1-8,17H,14H2,(H,15,16)" 
6Y3 InChIKey         InChI                1.03  MAEAMJWLVXANNO-UHFFFAOYSA-N                                                                    
6Y3 SMILES_CANONICAL CACTVS               3.385 "Nc1ccc(NC(=O)c2ccccc2[SeH])cc1"                                                               
6Y3 SMILES           CACTVS               3.385 "Nc1ccc(NC(=O)c2ccccc2[SeH])cc1"                                                               
6Y3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.5 "c1ccc(c(c1)C(=O)Nc2ccc(cc2)N)[SeH]"                                                           
6Y3 SMILES           "OpenEye OEToolkits" 2.0.5 "c1ccc(c(c1)C(=O)Nc2ccc(cc2)N)[SeH]"                                                           
# 
_pdbx_chem_comp_identifier.comp_id           6Y3 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.5 
_pdbx_chem_comp_identifier.identifier        "~{N}-(4-aminophenyl)-2-selanyl-benzamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
6Y3 "Create component" 2016-07-21 RCSB 
6Y3 "Initial release"  2017-03-29 RCSB 
6Y3 "Modify synonyms"  2021-03-01 PDBE 
6Y3 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      6Y3 
_pdbx_chem_comp_synonyms.name         "amino-ebselen (open form)" 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            6Y3 
_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               SE07 
_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      ? 
# 
