data_5YKE # _model_server_result.job_id sKxOXkKq8F0obnwk_VzzGw _model_server_result.datetime_utc '2024-11-23 10:42:27' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5yke # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":2001}' # _entry.id 5YKE # _exptl.entry_id 5YKE _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 494.004 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5YKE _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation ? _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 110 A CYS 110 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 C SG CYS 110 C CYS 110 1_555 C SG CYS 142 C CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 E SG CYS 110 E CYS 110 1_555 E SG CYS 142 E CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf4 G SG CYS 110 G CYS 110 1_555 G SG CYS 142 G CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? # _chem_comp.formula 'C23 H28 Cl N3 O5 S' _chem_comp.formula_weight 494.004 _chem_comp.id GBM _chem_comp.mon_nstd_flag . _chem_comp.name 5-chloro-N-(2-{4-[(cyclohexylcarbamoyl)sulfamoyl]phenyl}ethyl)-2-methoxybenzamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Glibenclamide;Glyburide # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CL1 C31 GBM sing 83 n n C31 C29 GBM doub 84 n y C31 C32 GBM sing 85 n y C29 C27 GBM sing 86 n y C32 C30 GBM doub 87 n y O6 C26 GBM doub 88 n n C27 C26 GBM sing 89 n n C27 C28 GBM doub 90 n y C30 C28 GBM sing 91 n y C26 N10 GBM sing 92 n n C28 O7 GBM sing 93 n n O3 C17 GBM doub 94 n n N10 C25 GBM sing 95 n n C23 C21 GBM doub 96 n y C23 C19 GBM sing 97 n y O7 C33 GBM sing 98 n n C21 C18 GBM sing 99 n y C25 C20 GBM sing 100 n n N9 C17 GBM sing 101 n n N9 S2 GBM sing 102 n n C17 N8 GBM sing 103 n n C20 C19 GBM sing 104 n n C19 C24 GBM doub 105 n y O5 S2 GBM doub 106 n n C18 S2 GBM sing 107 n n C18 C22 GBM doub 108 n y C14 C12 GBM sing 109 n n C14 C16 GBM sing 110 n n C13 C11 GBM sing 111 n n C13 C15 GBM sing 112 n n S2 O4 GBM doub 113 n n C12 C11 GBM sing 114 n n N8 C11 GBM sing 115 n n C15 C16 GBM sing 116 n n C24 C22 GBM sing 117 n y N8 H1 GBM sing 118 n n N9 H2 GBM sing 119 n n N10 H3 GBM sing 120 n n C11 H4 GBM sing 121 n n C12 H5 GBM sing 122 n n C12 H6 GBM sing 123 n n C13 H7 GBM sing 124 n n C13 H8 GBM sing 125 n n C14 H9 GBM sing 126 n n C14 H10 GBM sing 127 n n C15 H11 GBM sing 128 n n C15 H12 GBM sing 129 n n C16 H13 GBM sing 130 n n C16 H14 GBM sing 131 n n C20 H15 GBM sing 132 n n C20 H16 GBM sing 133 n n C21 H17 GBM sing 134 n n C22 H18 GBM sing 135 n n C23 H19 GBM sing 136 n n C24 H20 GBM sing 137 n n C25 H21 GBM sing 138 n n C25 H22 GBM sing 139 n n C29 H23 GBM sing 140 n n C30 H24 GBM sing 141 n n C32 H25 GBM sing 142 n n C33 H26 GBM sing 143 n n C33 H27 GBM sing 144 n n C33 H28 GBM sing 145 n n # _atom_sites.entry_id 5YKE _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code I 3 GBM B 1 2001 2001 GBM GBM . J 3 GBM D 1 2001 2001 GBM GBM . K 3 GBM F 1 2001 2001 GBM GBM . L 3 GBM H 1 2001 2001 GBM GBM . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 O O3 GBM . . . J 3 113.739 199.623 178.809 1 90.52 ? O3 GBM 2001 D 1 HETATM 2 O O4 GBM . . . J 3 113.014 201.411 180.793 1 86.59 ? O4 GBM 2001 D 1 HETATM 3 O O5 GBM . . . J 3 111.689 203.129 179.961 1 96.56 ? O5 GBM 2001 D 1 HETATM 4 O O6 GBM . . . J 3 108.119 201.232 183.04 1 107.93 ? O6 GBM 2001 D 1 HETATM 5 CL CL1 GBM . . . J 3 105.464 198.973 188.321 1 139.31 ? CL1 GBM 2001 D 1 HETATM 6 S S2 GBM . . . J 3 112.005 201.732 179.817 1 92.62 ? S2 GBM 2001 D 1 HETATM 7 O O7 GBM . . . J 3 109.23 202.423 185.214 1 114.47 ? O7 GBM 2001 D 1 HETATM 8 N N8 GBM . . . J 3 113.505 200.156 176.686 1 94.3 ? N8 GBM 2001 D 1 HETATM 9 N N9 GBM . . . J 3 112.542 201.455 178.32 1 92.05 ? N9 GBM 2001 D 1 HETATM 10 N N10 GBM . . . J 3 106.658 199.545 183.207 1 104.37 ? N10 GBM 2001 D 1 HETATM 11 C C11 GBM . . . J 3 112.836 200.861 175.617 1 91.65 ? C11 GBM 2001 D 1 HETATM 12 C C12 GBM . . . J 3 111.497 200.188 175.359 1 89.08 ? C12 GBM 2001 D 1 HETATM 13 C C13 GBM . . . J 3 113.712 200.766 174.376 1 93.33 ? C13 GBM 2001 D 1 HETATM 14 C C14 GBM . . . J 3 110.809 200.765 174.132 1 85.31 ? C14 GBM 2001 D 1 HETATM 15 C C15 GBM . . . J 3 113.018 201.312 173.135 1 92.2 ? C15 GBM 2001 D 1 HETATM 16 C C16 GBM . . . J 3 111.695 200.598 172.907 1 85.93 ? C16 GBM 2001 D 1 HETATM 17 C C17 GBM . . . J 3 113.275 200.387 177.976 1 92.19 ? C17 GBM 2001 D 1 HETATM 18 C C18 GBM . . . J 3 110.689 200.869 180.122 1 96.44 ? C18 GBM 2001 D 1 HETATM 19 C C19 GBM . . . J 3 108.419 199.36 180.68 1 95.04 ? C19 GBM 2001 D 1 HETATM 20 C C20 GBM . . . J 3 107.197 198.539 181.01 1 101.6 ? C20 GBM 2001 D 1 HETATM 21 C C21 GBM . . . J 3 109.522 201.057 179.384 1 97.39 ? C21 GBM 2001 D 1 HETATM 22 C C22 GBM . . . J 3 110.71 199.927 181.145 1 95.31 ? C22 GBM 2001 D 1 HETATM 23 C C23 GBM . . . J 3 108.386 200.304 179.662 1 95.19 ? C23 GBM 2001 D 1 HETATM 24 C C24 GBM . . . J 3 109.578 199.175 181.423 1 94.45 ? C24 GBM 2001 D 1 HETATM 25 C C25 GBM . . . J 3 107.154 198.362 182.525 1 103.57 ? C25 GBM 2001 D 1 HETATM 26 C C26 GBM . . . J 3 107.444 200.489 183.73 1 107.07 ? C26 GBM 2001 D 1 HETATM 27 C C27 GBM . . . J 3 107.46 200.653 185.22 1 113.54 ? C27 GBM 2001 D 1 HETATM 28 C C28 GBM . . . J 3 108.359 201.622 185.907 1 116.32 ? C28 GBM 2001 D 1 HETATM 29 C C29 GBM . . . J 3 106.601 199.875 185.981 1 115.5 ? C29 GBM 2001 D 1 HETATM 30 C C30 GBM . . . J 3 108.305 201.712 187.292 1 117.51 ? C30 GBM 2001 D 1 HETATM 31 C C31 GBM . . . J 3 106.586 199.999 187.365 1 120.22 ? C31 GBM 2001 D 1 HETATM 32 C C32 GBM . . . J 3 107.427 200.905 188.01 1 131.44 ? C32 GBM 2001 D 1 HETATM 33 C C33 GBM . . . J 3 108.903 203.785 184.939 1 115.15 ? C33 GBM 2001 D 1 # _model_server_stats.io_time_ms 72 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 96 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 33 #