data_6PDO # _model_server_result.job_id 9Ba_3dI0BpZGz1dRNSXU_Q _model_server_result.datetime_utc '2025-03-04 15:20:55' _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 6pdo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 6PDO # _exptl.entry_id 6PDO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 359.466 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-{5-[(3-aminopropyl)carbamoyl]thiophen-2-yl}-1-benzothiophene-2-carboxamide _entity.pdbx_number_of_molecules 1 _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 6PDO _cell.length_a 96.034 _cell.length_b 96.034 _cell.length_c 79.859 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PDO _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C17 H17 N3 O2 S2' _chem_comp.formula_weight 359.466 _chem_comp.id OD1 _chem_comp.mon_nstd_flag . _chem_comp.name 4-{5-[(3-aminopropyl)carbamoyl]thiophen-2-yl}-1-benzothiophene-2-carboxamide _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 N3 C17 OD1 sing 237 n n C17 C16 OD1 sing 238 n n C16 C15 OD1 sing 239 n n C15 N2 OD1 sing 240 n n N2 C14 OD1 sing 241 n n O2 C14 OD1 doub 242 n n C14 C13 OD1 sing 243 n n C13 C12 OD1 doub 244 n y C13 S2 OD1 sing 245 n y C12 C11 OD1 sing 246 n y S2 C10 OD1 sing 247 n y C11 C10 OD1 doub 248 n y C10 C5 OD1 sing 249 n n C5 C4 OD1 doub 250 n y C5 C6 OD1 sing 251 n y C4 C3 OD1 sing 252 n y C8 C6 OD1 sing 253 n y C8 C7 OD1 doub 254 n y N1 C9 OD1 sing 255 n n C6 C1 OD1 doub 256 n y C7 C9 OD1 sing 257 n n C7 S1 OD1 sing 258 n y C3 C2 OD1 doub 259 n y C9 O1 OD1 doub 260 n n C1 C2 OD1 sing 261 n y C1 S1 OD1 sing 262 n y C4 H1 OD1 sing 263 n n C11 H2 OD1 sing 264 n n C8 H4 OD1 sing 265 n n C12 H6 OD1 sing 266 n n N1 H9 OD1 sing 267 n n N1 H10 OD1 sing 268 n n N2 H11 OD1 sing 269 n n C3 H12 OD1 sing 270 n n N3 H13 OD1 sing 271 n n N3 H14 OD1 sing 272 n n C2 H16 OD1 sing 273 n n C15 H17 OD1 sing 274 n n C15 H18 OD1 sing 275 n n C16 H19 OD1 sing 276 n n C16 H20 OD1 sing 277 n n C17 H21 OD1 sing 278 n n C17 H22 OD1 sing 279 n n # _atom_sites.entry_id 6PDO _atom_sites.fract_transf_matrix[1][1] 0.010413 _atom_sites.fract_transf_matrix[1][2] 0.006012 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012024 _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] 0.012522 _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 C 3 OD1 A 1 501 501 OD1 DRG . D 4 HOH A 1 601 1070 HOH HOH . D 4 HOH A 2 602 1040 HOH HOH . D 4 HOH A 3 603 1068 HOH HOH . D 4 HOH A 4 604 1059 HOH HOH . D 4 HOH A 5 605 1060 HOH HOH . D 4 HOH A 6 606 1055 HOH HOH . D 4 HOH A 7 607 1028 HOH HOH . D 4 HOH A 8 608 1052 HOH HOH . D 4 HOH A 9 609 1062 HOH HOH . D 4 HOH A 10 610 1076 HOH HOH . D 4 HOH A 11 611 1077 HOH HOH . D 4 HOH A 12 612 1035 HOH HOH . D 4 HOH A 13 613 1082 HOH HOH . D 4 HOH A 14 614 1037 HOH HOH . D 4 HOH A 15 615 1017 HOH HOH . D 4 HOH A 16 616 1009 HOH HOH . D 4 HOH A 17 617 1081 HOH HOH . D 4 HOH A 18 618 1034 HOH HOH . D 4 HOH A 19 619 1056 HOH HOH . D 4 HOH A 20 620 1061 HOH HOH . D 4 HOH A 21 621 1079 HOH HOH . D 4 HOH A 22 622 1054 HOH HOH . D 4 HOH A 23 623 1013 HOH HOH . D 4 HOH A 24 624 1049 HOH HOH . D 4 HOH A 25 625 1075 HOH HOH . D 4 HOH A 26 626 1051 HOH HOH . D 4 HOH A 27 627 1043 HOH HOH . D 4 HOH A 28 628 1010 HOH HOH . D 4 HOH A 29 629 1083 HOH HOH . D 4 HOH A 30 630 1002 HOH HOH . D 4 HOH A 31 631 1044 HOH HOH . D 4 HOH A 32 632 1046 HOH HOH . D 4 HOH A 33 633 1047 HOH HOH . D 4 HOH A 34 634 1069 HOH HOH . D 4 HOH A 35 635 1006 HOH HOH . D 4 HOH A 36 636 1004 HOH HOH . D 4 HOH A 37 637 1078 HOH HOH . D 4 HOH A 38 638 1019 HOH HOH . D 4 HOH A 39 639 1011 HOH HOH . D 4 HOH A 40 640 1022 HOH HOH . D 4 HOH A 41 641 1063 HOH HOH . D 4 HOH A 42 642 1058 HOH HOH . D 4 HOH A 43 643 1045 HOH HOH . D 4 HOH A 44 644 1053 HOH HOH . D 4 HOH A 45 645 1067 HOH HOH . D 4 HOH A 46 646 1001 HOH HOH . D 4 HOH A 47 647 1041 HOH HOH . D 4 HOH A 48 648 1064 HOH HOH . D 4 HOH A 49 649 1080 HOH HOH . D 4 HOH A 50 650 1073 HOH HOH . D 4 HOH A 51 651 1057 HOH HOH . D 4 HOH A 52 652 1074 HOH HOH . D 4 HOH A 53 653 1016 HOH HOH . E 4 HOH B 1 101 1015 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 C4 OD1 . . . C 3 -21.69 38.274 0.572 1 81.35 ? C4 OD1 501 A 1 HETATM 2 C C14 OD1 . . . C 3 -21.256 37.795 -5.185 1 114.69 ? C14 OD1 501 A 1 HETATM 3 C C5 OD1 . . . C 3 -20.815 37.335 0.06 1 87.66 ? C5 OD1 501 A 1 HETATM 4 C C6 OD1 . . . C 3 -19.997 36.614 0.956 1 82.97 ? C6 OD1 501 A 1 HETATM 5 C C11 OD1 . . . C 3 -20.612 35.898 -2.034 1 99.55 ? C11 OD1 501 A 1 HETATM 6 C C7 OD1 . . . C 3 -18.443 35.097 1.827 1 79.8 ? C7 OD1 501 A 1 HETATM 7 C C8 OD1 . . . C 3 -19.008 35.59 0.688 1 80.1 ? C8 OD1 501 A 1 HETATM 8 C C9 OD1 . . . C 3 -17.434 34.015 1.94 1 80.88 ? C9 OD1 501 A 1 HETATM 9 C C10 OD1 . . . C 3 -20.741 37.095 -1.389 1 96.35 ? C10 OD1 501 A 1 HETATM 10 C C12 OD1 . . . C 3 -20.507 36.035 -3.425 1 104.5 ? C12 OD1 501 A 1 HETATM 11 C C13 OD1 . . . C 3 -20.859 37.283 -3.848 1 110.04 ? C13 OD1 501 A 1 HETATM 12 N N1 OD1 . . . C 3 -17.137 33.345 0.845 1 82.07 ? N1 OD1 501 A 1 HETATM 13 N N2 OD1 . . . C 3 -21.009 37.002 -6.23 1 118.76 ? N2 OD1 501 A 1 HETATM 14 C C3 OD1 . . . C 3 -21.787 38.517 1.931 1 82.18 ? C3 OD1 501 A 1 HETATM 15 N N3 OD1 . . . C 3 -19.91 37.585 -10.933 1 115.97 ? N3 OD1 501 A 1 HETATM 16 C C1 OD1 . . . C 3 -20.102 36.876 2.338 1 80.25 ? C1 OD1 501 A 1 HETATM 17 C C2 OD1 . . . C 3 -21 37.831 2.828 1 81.23 ? C2 OD1 501 A 1 HETATM 18 S S1 OD1 . . . C 3 -19.021 35.891 3.267 1 87.13 ? S1 OD1 501 A 1 HETATM 19 O O1 OD1 . . . C 3 -16.913 33.79 3.037 1 75.88 ? O1 OD1 501 A 1 HETATM 20 S S2 OD1 . . . C 3 -20.837 38.388 -2.526 1 107.79 ? S2 OD1 501 A 1 HETATM 21 O O2 OD1 . . . C 3 -21.813 38.888 -5.291 1 112.4 ? O2 OD1 501 A 1 HETATM 22 C C15 OD1 . . . C 3 -21.625 37.212 -7.536 1 117.39 ? C15 OD1 501 A 1 HETATM 23 C C16 OD1 . . . C 3 -20.663 36.935 -8.675 1 116.6 ? C16 OD1 501 A 1 HETATM 24 C C17 OD1 . . . C 3 -20.967 37.714 -9.924 1 115.82 ? C17 OD1 501 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 24 #