data_5QTH # _model_server_result.job_id KNjyrBscM0834ye42JS99g _model_server_result.datetime_utc '2025-01-25 08:28:34' _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 5qth # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 5QTH # _exptl.entry_id 5QTH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 196.269 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N,N-dimethyl-2-(methylsulfanyl)pyridine-3-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 5QTH _cell.length_a 60.556 _cell.length_b 60.556 _cell.length_c 339.825 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QTH _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _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,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H12 N2 O S' _chem_comp.formula_weight 196.269 _chem_comp.id PJY _chem_comp.mon_nstd_flag . _chem_comp.name N,N-dimethyl-2-(methylsulfanyl)pyridine-3-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 C1 S2 PJY sing 273 n n S2 C3 PJY sing 274 n n C12 N11 PJY sing 275 n n N4 C3 PJY doub 276 n y N4 C5 PJY sing 277 n y C3 C8 PJY sing 278 n y C5 C6 PJY doub 279 n y N11 C13 PJY sing 280 n n N11 C9 PJY sing 281 n n C8 C9 PJY sing 282 n n C8 C7 PJY doub 283 n y C9 O10 PJY doub 284 n n C6 C7 PJY sing 285 n y C1 H1 PJY sing 286 n n C1 H2 PJY sing 287 n n C1 H3 PJY sing 288 n n C12 H4 PJY sing 289 n n C12 H5 PJY sing 290 n n C12 H6 PJY sing 291 n n C13 H7 PJY sing 292 n n C13 H8 PJY sing 293 n n C13 H9 PJY sing 294 n n C5 H10 PJY sing 295 n n C6 H11 PJY sing 296 n n C7 H12 PJY sing 297 n n # _atom_sites.entry_id 5QTH _atom_sites.fract_transf_matrix[1][1] 0.016514 _atom_sites.fract_transf_matrix[1][2] 0.009534 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019068 _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] 0.002943 _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 B 2 PO4 A 1 401 3 PO4 PO4 . C 2 PO4 A 1 402 401 PO4 PO4 . D 3 GOL A 1 403 501 GOL GOL . E 4 PJY A 1 404 401 PJY LI1 . F 5 HOH A 1 501 120 HOH HOH . F 5 HOH A 2 502 42 HOH HOH . F 5 HOH A 3 503 127 HOH HOH . F 5 HOH A 4 504 69 HOH HOH . F 5 HOH A 5 505 99 HOH HOH . F 5 HOH A 6 506 52 HOH HOH . F 5 HOH A 7 507 59 HOH HOH . F 5 HOH A 8 508 123 HOH HOH . F 5 HOH A 9 509 82 HOH HOH . F 5 HOH A 10 510 50 HOH HOH . F 5 HOH A 11 511 11 HOH HOH . F 5 HOH A 12 512 110 HOH HOH . F 5 HOH A 13 513 106 HOH HOH . F 5 HOH A 14 514 6 HOH HOH . F 5 HOH A 15 515 87 HOH HOH . F 5 HOH A 16 516 92 HOH HOH . F 5 HOH A 17 517 116 HOH HOH . F 5 HOH A 18 518 89 HOH HOH . F 5 HOH A 19 519 54 HOH HOH . F 5 HOH A 20 520 35 HOH HOH . F 5 HOH A 21 521 14 HOH HOH . F 5 HOH A 22 522 5 HOH HOH . F 5 HOH A 23 523 55 HOH HOH . F 5 HOH A 24 524 7 HOH HOH . F 5 HOH A 25 525 8 HOH HOH . F 5 HOH A 26 526 27 HOH HOH . F 5 HOH A 27 527 39 HOH HOH . F 5 HOH A 28 528 19 HOH HOH . F 5 HOH A 29 529 20 HOH HOH . F 5 HOH A 30 530 71 HOH HOH . F 5 HOH A 31 531 79 HOH HOH . F 5 HOH A 32 532 62 HOH HOH . F 5 HOH A 33 533 37 HOH HOH . F 5 HOH A 34 534 22 HOH HOH . F 5 HOH A 35 535 73 HOH HOH . F 5 HOH A 36 536 3 HOH HOH . F 5 HOH A 37 537 84 HOH HOH . F 5 HOH A 38 538 23 HOH HOH . F 5 HOH A 39 539 61 HOH HOH . F 5 HOH A 40 540 17 HOH HOH . F 5 HOH A 41 541 4 HOH HOH . F 5 HOH A 42 542 38 HOH HOH . F 5 HOH A 43 543 78 HOH HOH . F 5 HOH A 44 544 125 HOH HOH . F 5 HOH A 45 545 13 HOH HOH . F 5 HOH A 46 546 46 HOH HOH . F 5 HOH A 47 547 12 HOH HOH . F 5 HOH A 48 548 104 HOH HOH . F 5 HOH A 49 549 9 HOH HOH . F 5 HOH A 50 550 32 HOH HOH . F 5 HOH A 51 551 29 HOH HOH . F 5 HOH A 52 552 114 HOH HOH . F 5 HOH A 53 553 90 HOH HOH . F 5 HOH A 54 554 33 HOH HOH . F 5 HOH A 55 555 24 HOH HOH . F 5 HOH A 56 556 44 HOH HOH . F 5 HOH A 57 557 49 HOH HOH . F 5 HOH A 58 558 1 HOH HOH . F 5 HOH A 59 559 75 HOH HOH . F 5 HOH A 60 560 88 HOH HOH . F 5 HOH A 61 561 53 HOH HOH . F 5 HOH A 62 562 124 HOH HOH . F 5 HOH A 63 563 76 HOH HOH . F 5 HOH A 64 564 74 HOH HOH . F 5 HOH A 65 565 40 HOH HOH . F 5 HOH A 66 566 130 HOH HOH . F 5 HOH A 67 567 34 HOH HOH . F 5 HOH A 68 568 72 HOH HOH . F 5 HOH A 69 569 83 HOH HOH . F 5 HOH A 70 570 43 HOH HOH . F 5 HOH A 71 571 21 HOH HOH . F 5 HOH A 72 572 41 HOH HOH . F 5 HOH A 73 573 102 HOH HOH . F 5 HOH A 74 574 2 HOH HOH . F 5 HOH A 75 575 126 HOH HOH . F 5 HOH A 76 576 28 HOH HOH . F 5 HOH A 77 577 80 HOH HOH . F 5 HOH A 78 578 64 HOH HOH . F 5 HOH A 79 579 96 HOH HOH . F 5 HOH A 80 580 85 HOH HOH . F 5 HOH A 81 581 113 HOH HOH . F 5 HOH A 82 582 18 HOH HOH . F 5 HOH A 83 583 45 HOH HOH . F 5 HOH A 84 584 16 HOH HOH . F 5 HOH A 85 585 56 HOH HOH . F 5 HOH A 86 586 86 HOH HOH . F 5 HOH A 87 587 10 HOH HOH . F 5 HOH A 88 588 15 HOH HOH . F 5 HOH A 89 589 101 HOH HOH . F 5 HOH A 90 590 129 HOH HOH . F 5 HOH A 91 591 118 HOH HOH . F 5 HOH A 92 592 60 HOH HOH . F 5 HOH A 93 593 30 HOH HOH . F 5 HOH A 94 594 119 HOH HOH . F 5 HOH A 95 595 58 HOH HOH . F 5 HOH A 96 596 117 HOH HOH . F 5 HOH A 97 597 67 HOH HOH . F 5 HOH A 98 598 112 HOH HOH . F 5 HOH A 99 599 98 HOH HOH . F 5 HOH A 100 600 95 HOH HOH . F 5 HOH A 101 601 25 HOH HOH . F 5 HOH A 102 602 91 HOH HOH . F 5 HOH A 103 603 47 HOH HOH . F 5 HOH A 104 604 66 HOH HOH . F 5 HOH A 105 605 93 HOH HOH . F 5 HOH A 106 606 57 HOH HOH . F 5 HOH A 107 607 115 HOH HOH . F 5 HOH A 108 608 70 HOH HOH . F 5 HOH A 109 609 26 HOH HOH . F 5 HOH A 110 610 128 HOH HOH . F 5 HOH A 111 611 31 HOH HOH . F 5 HOH A 112 612 36 HOH HOH . F 5 HOH A 113 613 65 HOH HOH . F 5 HOH A 114 614 81 HOH HOH . F 5 HOH A 115 615 108 HOH HOH . F 5 HOH A 116 616 131 HOH HOH . F 5 HOH A 117 617 111 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 PJY . . . E 4 1.718 20.638 -15.868 0.42 52.01 ? C1 PJY 404 A 1 HETATM 2 C C3 PJY . . . E 4 1.818 19.049 -13.685 0.42 49.24 ? C3 PJY 404 A 1 HETATM 3 C C12 PJY . . . E 4 3.977 16.267 -14.293 0.42 50.1 ? C12 PJY 404 A 1 HETATM 4 C C13 PJY . . . E 4 6.048 16.994 -12.98 0.42 51.8 ? C13 PJY 404 A 1 HETATM 5 C C5 PJY . . . E 4 -0.368 18.276 -13.28 0.42 47.82 ? C5 PJY 404 A 1 HETATM 6 C C6 PJY . . . E 4 0.105 17.289 -12.416 0.42 44.55 ? C6 PJY 404 A 1 HETATM 7 C C7 PJY . . . E 4 1.478 17.197 -12.191 0.42 44.59 ? C7 PJY 404 A 1 HETATM 8 C C8 PJY . . . E 4 2.35 18.08 -12.83 0.42 47.16 ? C8 PJY 404 A 1 HETATM 9 C C9 PJY . . . E 4 3.837 17.969 -12.58 0.42 49.22 ? C9 PJY 404 A 1 HETATM 10 N N11 PJY . . . E 4 4.613 17.083 -13.259 0.42 50.28 ? N11 PJY 404 A 1 HETATM 11 N N4 PJY . . . E 4 0.486 19.122 -13.888 0.42 49.37 ? N4 PJY 404 A 1 HETATM 12 O O10 PJY . . . E 4 4.292 18.684 -11.702 0.42 51.46 ? O10 PJY 404 A 1 HETATM 13 S S2 PJY . . . E 4 2.865 20.203 -14.529 0.42 51.31 ? S2 PJY 404 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 13 #