data_6GX9 # _model_server_result.job_id 2PSpoOkXT9B6C76_p7b7cQ _model_server_result.datetime_utc '2025-08-01 02:14:14' _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 6gx9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1004}' # _entry.id 6GX9 # _exptl.entry_id 6GX9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 120.152 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BENZAMIDINE _entity.pdbx_number_of_molecules 2 _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 120 _cell.entry_id 6GX9 _cell.length_a 200.335 _cell.length_b 200.335 _cell.length_c 234.807 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GX9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,H,M 1 1 B,D,I,J,K,L,N 2 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 x,y,z _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 ? 5 H N N ? 5 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 covale ? covale1 A OE2 GLU 301 A GLU 301 1_555 H N2 BEN . A BEN 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale2 B OE2 GLU 301 B GLU 301 1_555 L N1 BEN . B BEN 1004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale3 C C ARG 44 C ARG 524 1_555 C N SEP 45 C SEP 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 C C SEP 45 C SEP 525 1_555 C N ARG 46 C ARG 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale5 D C ARG 44 D ARG 524 1_555 D N SEP 45 D SEP 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 D C SEP 45 D SEP 525 1_555 D N ARG 46 D ARG 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 A OE2 GLU 710 A GLU 710 1_555 I MG MG . B MG 1001 3_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? metalc ? metalc2 A OE1 GLU 812 A GLU 812 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.393 ? metalc ? metalc3 A OE2 GLU 813 A GLU 813 1_555 E MG MG . A MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc4 A OE2 GLU 813 A GLU 813 1_555 F MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc5 B OE1 GLU 812 B GLU 812 1_555 I MG MG . B MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.607 ? metalc ? metalc6 B OE1 GLU 812 B GLU 812 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? metalc ? metalc7 B OE2 GLU 813 B GLU 813 1_555 I MG MG . B MG 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc8 B OE2 GLU 813 B GLU 813 1_555 J MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.575 ? # _chem_comp.formula 'C7 H8 N2' _chem_comp.formula_weight 120.152 _chem_comp.id BEN _chem_comp.mon_nstd_flag . _chem_comp.name BENZAMIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 C1 C2 BEN doub 93 n y C1 C6 BEN sing 94 n y C1 C BEN sing 95 n n C2 C3 BEN sing 96 n y C2 H2 BEN sing 97 n n C3 C4 BEN doub 98 n y C3 H3 BEN sing 99 n n C4 C5 BEN sing 100 n y C4 H4 BEN sing 101 n n C5 C6 BEN doub 102 n y C5 H5 BEN sing 103 n n C6 H6 BEN sing 104 n n C N1 BEN doub 105 e n C N2 BEN sing 106 n n N1 HN1 BEN sing 107 n n N2 HN21 BEN sing 108 n n N2 HN22 BEN sing 109 n n # _atom_sites.entry_id 6GX9 _atom_sites.fract_transf_matrix[1][1] 0.004992 _atom_sites.fract_transf_matrix[1][2] 0.002882 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005764 _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] 0.004259 _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 E 3 MG A 1 1001 4 MG MG . F 3 MG A 1 1002 6 MG MG . G 4 BCN A 1 1003 1 BCN BCN . H 5 BEN A 1 1004 2 BEN BEN . I 3 MG B 1 1001 5 MG MG . J 3 MG B 1 1002 7 MG MG . K 4 BCN B 1 1003 2 BCN BCN . L 5 BEN B 1 1004 1 BEN BEN . M 6 HOH A 1 1101 31 HOH HOH . M 6 HOH A 2 1102 26 HOH HOH . M 6 HOH A 3 1103 23 HOH HOH . M 6 HOH A 4 1104 22 HOH HOH . M 6 HOH A 5 1105 21 HOH HOH . M 6 HOH A 6 1106 28 HOH HOH . M 6 HOH A 7 1107 1 HOH HOH . M 6 HOH A 8 1108 20 HOH HOH . M 6 HOH A 9 1109 19 HOH HOH . M 6 HOH A 10 1110 24 HOH HOH . M 6 HOH A 11 1111 27 HOH HOH . M 6 HOH A 12 1112 8 HOH HOH . M 6 HOH A 13 1113 2 HOH HOH . M 6 HOH A 14 1114 25 HOH HOH . M 6 HOH A 15 1115 4 HOH HOH . M 6 HOH A 16 1116 16 HOH HOH . M 6 HOH A 17 1117 29 HOH HOH . M 6 HOH A 18 1118 10 HOH HOH . M 6 HOH A 19 1119 17 HOH HOH . M 6 HOH A 20 1120 13 HOH HOH . N 6 HOH B 1 1101 32 HOH HOH . N 6 HOH B 2 1102 33 HOH HOH . N 6 HOH B 3 1103 30 HOH HOH . N 6 HOH B 4 1104 34 HOH HOH . N 6 HOH B 5 1105 18 HOH HOH . N 6 HOH B 6 1106 3 HOH HOH . N 6 HOH B 7 1107 14 HOH HOH . N 6 HOH B 8 1108 15 HOH HOH . N 6 HOH B 9 1109 12 HOH HOH . N 6 HOH B 10 1110 9 HOH HOH . # 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 C C1 BEN . . . H 5 -3.003 -85.441 20.695 1 82.34 ? C1 BEN 1004 A 1 HETATM 2 C C2 BEN . . . H 5 -1.697 -85.844 20.96 1 78.58 ? C2 BEN 1004 A 1 HETATM 3 C C3 BEN . . . H 5 -0.72 -84.886 21.225 1 81.77 ? C3 BEN 1004 A 1 HETATM 4 C C4 BEN . . . H 5 -1.046 -83.531 21.228 1 72.79 ? C4 BEN 1004 A 1 HETATM 5 C C5 BEN . . . H 5 -2.352 -83.129 20.964 1 73.3 ? C5 BEN 1004 A 1 HETATM 6 C C6 BEN . . . H 5 -3.327 -84.086 20.699 1 80.55 ? C6 BEN 1004 A 1 HETATM 7 C C BEN . . . H 5 -4.019 -86.371 20.428 1 80.04 ? C BEN 1004 A 1 HETATM 8 N N1 BEN . . . H 5 -5.254 -85.931 20.274 1 68.24 ? N1 BEN 1004 A 1 HETATM 9 N N2 BEN . . . H 5 -3.804 -87.679 20.331 1 87.88 ? N2 BEN 1004 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 9 #