data_3H1V # _model_server_result.job_id PKLTjG4mhfXLz4Lao6ckpA _model_server_result.datetime_utc '2024-11-08 19:39:23' _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 3h1v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 3H1V # _exptl.entry_id 3H1V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 476.504 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-({5-[4-(methylsulfonyl)phenoxy]-2-pyridin-2-yl-1H-benzimidazol-6-yl}methyl)pyrrolidine-2,5-dione _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 3H1V _cell.length_a 79.793 _cell.length_b 79.793 _cell.length_c 326.124 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3H1V _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 'C24 H20 N4 O5 S' _chem_comp.formula_weight 476.504 _chem_comp.id TK1 _chem_comp.mon_nstd_flag . _chem_comp.name 1-({5-[4-(methylsulfonyl)phenoxy]-2-pyridin-2-yl-1H-benzimidazol-6-yl}methyl)pyrrolidine-2,5-dione _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 S34 TK1 sing 330 n n C2 C3 TK1 doub 331 n y C2 C4 TK1 sing 332 n y C3 C9 TK1 sing 333 n y C4 C17 TK1 doub 334 n y C5 C7 TK1 doub 335 n y C5 C15 TK1 sing 336 n y C6 C8 TK1 sing 337 n y C6 C15 TK1 doub 338 n y C7 C16 TK1 sing 339 n y C8 C16 TK1 doub 340 n y C9 N26 TK1 doub 341 n y C10 C18 TK1 doub 342 n y C10 C19 TK1 sing 343 n y C11 C20 TK1 sing 344 n y C11 C21 TK1 doub 345 n y C12 C13 TK1 sing 346 n n C12 C23 TK1 sing 347 n n C13 C24 TK1 sing 348 n n C14 C18 TK1 sing 349 n n C14 N28 TK1 sing 350 n n C15 O33 TK1 sing 351 n n C16 S34 TK1 sing 352 n n C17 C22 TK1 sing 353 n y C17 N26 TK1 sing 354 n y C18 C21 TK1 sing 355 n y C19 C20 TK1 doub 356 n y C19 N25 TK1 sing 357 n y C20 N27 TK1 sing 358 n y C21 O33 TK1 sing 359 n n C22 N25 TK1 sing 360 n y C22 N27 TK1 doub 361 n y C23 N28 TK1 sing 362 n n C23 O29 TK1 doub 363 n n C24 N28 TK1 sing 364 n n C24 O30 TK1 doub 365 n n O31 S34 TK1 doub 366 n n O32 S34 TK1 doub 367 n n C1 H1 TK1 sing 368 n n C1 H1A TK1 sing 369 n n C1 H1B TK1 sing 370 n n C2 H2 TK1 sing 371 n n C3 H3 TK1 sing 372 n n C4 H4 TK1 sing 373 n n C5 H5 TK1 sing 374 n n C6 H6 TK1 sing 375 n n C7 H7 TK1 sing 376 n n C8 H8 TK1 sing 377 n n C9 H9 TK1 sing 378 n n C10 H10 TK1 sing 379 n n C11 H11 TK1 sing 380 n n C12 H12 TK1 sing 381 n n C12 H12A TK1 sing 382 n n C13 H13 TK1 sing 383 n n C13 H13A TK1 sing 384 n n C14 H14 TK1 sing 385 n n C14 H14A TK1 sing 386 n n N25 HN25 TK1 sing 387 n n # _atom_sites.entry_id 3H1V _atom_sites.fract_transf_matrix[1][1] 0.012532 _atom_sites.fract_transf_matrix[1][2] 0.007236 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014471 _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] 0.003066 _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 GLC X 1 500 500 GLC GLC . C 3 TK1 X 1 501 501 TK1 TK1 . D 4 NA X 1 600 600 NA NA1 . E 5 HOH X 1 601 601 HOH HOH . E 5 HOH X 2 602 602 HOH HOH . E 5 HOH X 3 603 603 HOH HOH . E 5 HOH X 4 604 604 HOH HOH . E 5 HOH X 5 605 605 HOH HOH . E 5 HOH X 6 606 606 HOH HOH . E 5 HOH X 7 607 607 HOH HOH . E 5 HOH X 8 608 608 HOH HOH . E 5 HOH X 9 610 610 HOH HOH . E 5 HOH X 10 611 611 HOH HOH . E 5 HOH X 11 612 612 HOH HOH . E 5 HOH X 12 613 613 HOH HOH . E 5 HOH X 13 614 614 HOH HOH . E 5 HOH X 14 615 615 HOH HOH . E 5 HOH X 15 616 616 HOH HOH . E 5 HOH X 16 617 617 HOH HOH . E 5 HOH X 17 618 618 HOH HOH . E 5 HOH X 18 619 619 HOH HOH . E 5 HOH X 19 620 620 HOH HOH . E 5 HOH X 20 621 621 HOH HOH . E 5 HOH X 21 622 622 HOH HOH . E 5 HOH X 22 623 623 HOH HOH . E 5 HOH X 23 624 624 HOH HOH . E 5 HOH X 24 625 625 HOH HOH . E 5 HOH X 25 626 626 HOH HOH . E 5 HOH X 26 627 627 HOH HOH . E 5 HOH X 27 628 628 HOH HOH . E 5 HOH X 28 629 629 HOH HOH . E 5 HOH X 29 630 630 HOH HOH . E 5 HOH X 30 631 631 HOH HOH . E 5 HOH X 31 632 632 HOH HOH . E 5 HOH X 32 633 633 HOH HOH . E 5 HOH X 33 634 634 HOH HOH . E 5 HOH X 34 635 635 HOH HOH . E 5 HOH X 35 636 636 HOH HOH . E 5 HOH X 36 637 637 HOH HOH . E 5 HOH X 37 638 638 HOH HOH . E 5 HOH X 38 639 639 HOH HOH . E 5 HOH X 39 640 640 HOH HOH . E 5 HOH X 40 642 642 HOH HOH . E 5 HOH X 41 643 643 HOH HOH . E 5 HOH X 42 644 644 HOH HOH . E 5 HOH X 43 645 645 HOH HOH . E 5 HOH X 44 646 646 HOH HOH . E 5 HOH X 45 647 647 HOH HOH . E 5 HOH X 46 648 648 HOH HOH . E 5 HOH X 47 649 649 HOH HOH . E 5 HOH X 48 650 650 HOH HOH . E 5 HOH X 49 651 651 HOH HOH . E 5 HOH X 50 652 652 HOH HOH . E 5 HOH X 51 653 653 HOH HOH . E 5 HOH X 52 654 654 HOH HOH . E 5 HOH X 53 656 656 HOH HOH . E 5 HOH X 54 657 657 HOH HOH . E 5 HOH X 55 659 659 HOH HOH . E 5 HOH X 56 660 660 HOH HOH . E 5 HOH X 57 661 661 HOH HOH . E 5 HOH X 58 662 662 HOH HOH . E 5 HOH X 59 663 663 HOH HOH . E 5 HOH X 60 664 664 HOH HOH . E 5 HOH X 61 665 665 HOH HOH . E 5 HOH X 62 666 666 HOH HOH . E 5 HOH X 63 667 667 HOH HOH . E 5 HOH X 64 668 668 HOH HOH . E 5 HOH X 65 670 670 HOH HOH . E 5 HOH X 66 672 672 HOH HOH . E 5 HOH X 67 673 673 HOH HOH . E 5 HOH X 68 674 674 HOH HOH . E 5 HOH X 69 675 675 HOH HOH . E 5 HOH X 70 678 678 HOH HOH . E 5 HOH X 71 681 681 HOH HOH . E 5 HOH X 72 682 682 HOH HOH . E 5 HOH X 73 683 683 HOH HOH . E 5 HOH X 74 684 684 HOH HOH . E 5 HOH X 75 689 689 HOH HOH . E 5 HOH X 76 690 690 HOH HOH . E 5 HOH X 77 691 691 HOH HOH . E 5 HOH X 78 696 696 HOH HOH . E 5 HOH X 79 703 703 HOH HOH . E 5 HOH X 80 705 705 HOH HOH . E 5 HOH X 81 706 706 HOH HOH . E 5 HOH X 82 707 707 HOH HOH . E 5 HOH X 83 715 715 HOH HOH . E 5 HOH X 84 717 717 HOH HOH . E 5 HOH X 85 718 718 HOH HOH . E 5 HOH X 86 719 719 HOH HOH . E 5 HOH X 87 721 721 HOH HOH . E 5 HOH X 88 722 722 HOH HOH . E 5 HOH X 89 723 723 HOH HOH . E 5 HOH X 90 724 724 HOH HOH . E 5 HOH X 91 725 725 HOH HOH . E 5 HOH X 92 726 726 HOH HOH . E 5 HOH X 93 727 727 HOH HOH . E 5 HOH X 94 728 728 HOH HOH . E 5 HOH X 95 729 729 HOH HOH . E 5 HOH X 96 730 730 HOH HOH . E 5 HOH X 97 731 731 HOH HOH . E 5 HOH X 98 732 732 HOH HOH . E 5 HOH X 99 733 733 HOH HOH . E 5 HOH X 100 734 734 HOH HOH . E 5 HOH X 101 735 735 HOH HOH . E 5 HOH X 102 736 736 HOH HOH . E 5 HOH X 103 737 737 HOH HOH . E 5 HOH X 104 738 738 HOH HOH . E 5 HOH X 105 739 739 HOH HOH . E 5 HOH X 106 740 740 HOH HOH . E 5 HOH X 107 741 741 HOH HOH . E 5 HOH X 108 742 742 HOH HOH . E 5 HOH X 109 744 744 HOH HOH . E 5 HOH X 110 746 746 HOH HOH . E 5 HOH X 111 747 747 HOH HOH . E 5 HOH X 112 749 749 HOH HOH . E 5 HOH X 113 751 751 HOH HOH . E 5 HOH X 114 752 752 HOH HOH . E 5 HOH X 115 753 753 HOH HOH . E 5 HOH X 116 754 754 HOH HOH . E 5 HOH X 117 755 755 HOH HOH . E 5 HOH X 118 756 756 HOH HOH . E 5 HOH X 119 761 761 HOH HOH . E 5 HOH X 120 765 765 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 TK1 . . . C 3 44.965 21.148 68.367 1 38.87 ? C1 TK1 501 X 1 HETATM 2 C C2 TK1 . . . C 3 34.49 21.352 60.295 1 29.26 ? C2 TK1 501 X 1 HETATM 3 C C3 TK1 . . . C 3 34.895 21.071 59.012 1 31.99 ? C3 TK1 501 X 1 HETATM 4 C C4 TK1 . . . C 3 35.129 20.772 61.363 1 34.02 ? C4 TK1 501 X 1 HETATM 5 C C5 TK1 . . . C 3 41.839 18.83 66.506 1 26.47 ? C5 TK1 501 X 1 HETATM 6 C C6 TK1 . . . C 3 41.383 17.843 68.661 1 23.89 ? C6 TK1 501 X 1 HETATM 7 C C7 TK1 . . . C 3 43.061 19.201 66.944 1 24.38 ? C7 TK1 501 X 1 HETATM 8 C C8 TK1 . . . C 3 42.631 18.209 69.115 1 30.49 ? C8 TK1 501 X 1 HETATM 9 C C9 TK1 . . . C 3 35.959 20.209 58.85 1 37.31 ? C9 TK1 501 X 1 HETATM 10 C C10 TK1 . . . C 3 39.528 17.056 63.38 1 24.47 ? C10 TK1 501 X 1 HETATM 11 C C11 TK1 . . . C 3 38.376 18.731 65.385 1 26.08 ? C11 TK1 501 X 1 HETATM 12 C C12 TK1 . . . C 3 41.795 12.99 62.805 1 29.29 ? C12 TK1 501 X 1 HETATM 13 C C13 TK1 . . . C 3 40.957 12.334 63.923 1 27.5 ? C13 TK1 501 X 1 HETATM 14 C C14 TK1 . . . C 3 41.036 15.954 64.986 1 30.55 ? C14 TK1 501 X 1 HETATM 15 C C15 TK1 . . . C 3 41.014 18.16 67.376 1 25.42 ? C15 TK1 501 X 1 HETATM 16 C C16 TK1 . . . C 3 43.423 18.89 68.224 1 30.12 ? C16 TK1 501 X 1 HETATM 17 C C17 TK1 . . . C 3 36.192 19.923 61.1 1 33.07 ? C17 TK1 501 X 1 HETATM 18 C C18 TK1 . . . C 3 39.959 16.973 64.687 1 28.16 ? C18 TK1 501 X 1 HETATM 19 C C19 TK1 . . . C 3 38.538 18.001 63.103 1 22.73 ? C19 TK1 501 X 1 HETATM 20 C C20 TK1 . . . C 3 37.943 18.837 64.047 1 26.33 ? C20 TK1 501 X 1 HETATM 21 C C21 TK1 . . . C 3 39.4 17.814 65.654 1 28.23 ? C21 TK1 501 X 1 HETATM 22 C C22 TK1 . . . C 3 36.98 19.311 62.152 1 29.42 ? C22 TK1 501 X 1 HETATM 23 C C23 TK1 . . . C 3 41.767 14.482 63.098 1 32.84 ? C23 TK1 501 X 1 HETATM 24 C C24 TK1 . . . C 3 40.539 13.548 64.756 1 30.8 ? C24 TK1 501 X 1 HETATM 25 N N25 TK1 . . . C 3 37.924 18.321 61.909 1 23.86 ? N25 TK1 501 X 1 HETATM 26 N N26 TK1 . . . C 3 36.629 19.654 59.866 1 31.72 ? N26 TK1 501 X 1 HETATM 27 N N27 TK1 . . . C 3 36.965 19.631 63.431 1 24.03 ? N27 TK1 501 X 1 HETATM 28 N N28 TK1 . . . C 3 40.964 14.714 64.188 1 29.56 ? N28 TK1 501 X 1 HETATM 29 O O29 TK1 . . . C 3 42.372 15.341 62.467 1 32.72 ? O29 TK1 501 X 1 HETATM 30 O O30 TK1 . . . C 3 39.98 13.535 65.821 1 28.04 ? O30 TK1 501 X 1 HETATM 31 O O31 TK1 . . . C 3 45.019 19.114 70.174 1 42.33 ? O31 TK1 501 X 1 HETATM 32 O O32 TK1 . . . C 3 46.024 18.84 67.838 1 42.99 ? O32 TK1 501 X 1 HETATM 33 O O33 TK1 . . . C 3 39.784 17.727 66.969 1 23.95 ? O33 TK1 501 X 1 HETATM 34 S S34 TK1 . . . C 3 45.018 19.399 68.735 1 39.57 ? S34 TK1 501 X 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 229 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 34 #