data_4DHY # _model_server_result.job_id CH3rw85snS0cCt-bt37crA _model_server_result.datetime_utc '2024-11-22 23:15:16' _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 4dhy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 4DHY # _exptl.entry_id 4DHY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 432.432 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N,N-dimethyl-5-({2-methyl-6-[(5-methylpyrazin-2-yl)carbamoyl]-1-benzofuran-4-yl}oxy)pyrimidine-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 90 _cell.entry_id 4DHY _cell.length_a 67.01 _cell.length_b 82.2 _cell.length_c 86.16 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DHY _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # 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 metalc ? metalc1 A O MET 242 A MET 238 1_555 D NA NA . A NA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc2 A O VAL 245 A VAL 241 1_555 D NA NA . A NA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc3 A O VAL 248 A VAL 244 1_555 D NA NA . A NA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc4 A O GLY 250 A GLY 246 1_555 D NA NA . A NA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? # _chem_comp.formula 'C22 H20 N6 O4' _chem_comp.formula_weight 432.432 _chem_comp.id S41 _chem_comp.mon_nstd_flag . _chem_comp.name N,N-dimethyl-5-({2-methyl-6-[(5-methylpyrazin-2-yl)carbamoyl]-1-benzofuran-4-yl}oxy)pyrimidine-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 C1 C2 S41 doub 301 n y C1 C6 S41 sing 302 n y C1 O7 S41 sing 303 n y C2 C3 S41 sing 304 n y C2 C9 S41 sing 305 n y C3 C4 S41 doub 306 n y C3 O12 S41 sing 307 n n C4 C5 S41 sing 308 n y C5 C6 S41 doub 309 n y C5 C11 S41 sing 310 n n O7 C8 S41 sing 311 n y C8 C9 S41 doub 312 n y C8 C10 S41 sing 313 n n C11 O13 S41 doub 314 n n C11 N14 S41 sing 315 n n O12 C15 S41 sing 316 n n N14 C26 S41 sing 317 n n C15 C16 S41 doub 318 n y C15 C20 S41 sing 319 n y C16 N17 S41 sing 320 n y N17 C18 S41 doub 321 n y C18 N19 S41 sing 322 n y C18 C21 S41 sing 323 n n N19 C20 S41 doub 324 n y C21 N22 S41 sing 325 n n C21 O23 S41 doub 326 n n N22 C24 S41 sing 327 n n N22 C25 S41 sing 328 n n C26 N27 S41 doub 329 n y C26 C31 S41 sing 330 n y N27 C28 S41 sing 331 n y C28 C29 S41 doub 332 n y C29 N30 S41 sing 333 n y C29 C32 S41 sing 334 n n N30 C31 S41 doub 335 n y C4 H4 S41 sing 336 n n C6 H6 S41 sing 337 n n C9 H9 S41 sing 338 n n C10 H10 S41 sing 339 n n C10 H10A S41 sing 340 n n C10 H10B S41 sing 341 n n N14 HN14 S41 sing 342 n n C16 H16 S41 sing 343 n n C20 H20 S41 sing 344 n n C24 H24 S41 sing 345 n n C24 H24A S41 sing 346 n n C24 H24B S41 sing 347 n n C25 H25 S41 sing 348 n n C25 H25A S41 sing 349 n n C25 H25B S41 sing 350 n n C28 H28 S41 sing 351 n n C31 H31 S41 sing 352 n n C32 H32 S41 sing 353 n n C32 H32A S41 sing 354 n n C32 H32B S41 sing 355 n n # _atom_sites.entry_id 4DHY _atom_sites.fract_transf_matrix[1][1] 0.014923 _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] 0.012165 _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] 0.011606 _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 A 1 501 500 GLC GLC . C 3 S41 A 1 502 4000 S41 PFE . D 4 NA A 1 503 600 NA NA . E 5 HOH A 1 601 1 HOH HOH . E 5 HOH A 2 602 2 HOH HOH . E 5 HOH A 3 603 3 HOH HOH . E 5 HOH A 4 604 4 HOH HOH . E 5 HOH A 5 605 5 HOH HOH . E 5 HOH A 6 606 6 HOH HOH . E 5 HOH A 7 607 7 HOH HOH . E 5 HOH A 8 608 8 HOH HOH . E 5 HOH A 9 609 9 HOH HOH . E 5 HOH A 10 610 10 HOH HOH . E 5 HOH A 11 611 11 HOH HOH . E 5 HOH A 12 612 13 HOH HOH . E 5 HOH A 13 613 14 HOH HOH . E 5 HOH A 14 614 15 HOH HOH . E 5 HOH A 15 615 16 HOH HOH . E 5 HOH A 16 616 17 HOH HOH . E 5 HOH A 17 617 18 HOH HOH . E 5 HOH A 18 618 19 HOH HOH . E 5 HOH A 19 619 20 HOH HOH . E 5 HOH A 20 620 21 HOH HOH . E 5 HOH A 21 621 22 HOH HOH . E 5 HOH A 22 622 23 HOH HOH . E 5 HOH A 23 623 24 HOH HOH . E 5 HOH A 24 624 25 HOH HOH . E 5 HOH A 25 625 26 HOH HOH . E 5 HOH A 26 626 27 HOH HOH . E 5 HOH A 27 627 28 HOH HOH . E 5 HOH A 28 628 29 HOH HOH . E 5 HOH A 29 629 30 HOH HOH . E 5 HOH A 30 630 31 HOH HOH . E 5 HOH A 31 631 32 HOH HOH . E 5 HOH A 32 632 33 HOH HOH . E 5 HOH A 33 633 34 HOH HOH . E 5 HOH A 34 634 35 HOH HOH . E 5 HOH A 35 635 36 HOH HOH . E 5 HOH A 36 636 37 HOH HOH . E 5 HOH A 37 637 38 HOH HOH . E 5 HOH A 38 638 39 HOH HOH . E 5 HOH A 39 639 40 HOH HOH . E 5 HOH A 40 640 41 HOH HOH . E 5 HOH A 41 641 42 HOH HOH . E 5 HOH A 42 642 43 HOH HOH . E 5 HOH A 43 643 44 HOH HOH . E 5 HOH A 44 644 45 HOH HOH . E 5 HOH A 45 645 46 HOH HOH . E 5 HOH A 46 646 47 HOH HOH . E 5 HOH A 47 647 48 HOH HOH . E 5 HOH A 48 648 49 HOH HOH . E 5 HOH A 49 649 50 HOH HOH . E 5 HOH A 50 650 51 HOH HOH . E 5 HOH A 51 651 52 HOH HOH . E 5 HOH A 52 652 53 HOH HOH . E 5 HOH A 53 653 54 HOH HOH . E 5 HOH A 54 654 55 HOH HOH . E 5 HOH A 55 655 56 HOH HOH . E 5 HOH A 56 656 57 HOH HOH . E 5 HOH A 57 657 58 HOH HOH . E 5 HOH A 58 658 59 HOH HOH . E 5 HOH A 59 659 60 HOH HOH . E 5 HOH A 60 660 61 HOH HOH . E 5 HOH A 61 661 62 HOH HOH . E 5 HOH A 62 662 63 HOH HOH . E 5 HOH A 63 663 64 HOH HOH . E 5 HOH A 64 664 65 HOH HOH . E 5 HOH A 65 665 66 HOH HOH . E 5 HOH A 66 666 67 HOH HOH . E 5 HOH A 67 667 68 HOH HOH . E 5 HOH A 68 668 69 HOH HOH . E 5 HOH A 69 669 70 HOH HOH . E 5 HOH A 70 670 71 HOH HOH . E 5 HOH A 71 671 72 HOH HOH . E 5 HOH A 72 672 73 HOH HOH . E 5 HOH A 73 673 74 HOH HOH . E 5 HOH A 74 674 75 HOH HOH . E 5 HOH A 75 675 76 HOH HOH . E 5 HOH A 76 676 77 HOH HOH . E 5 HOH A 77 677 78 HOH HOH . E 5 HOH A 78 678 79 HOH HOH . E 5 HOH A 79 679 80 HOH HOH . E 5 HOH A 80 680 81 HOH HOH . E 5 HOH A 81 681 82 HOH HOH . E 5 HOH A 82 682 83 HOH HOH . E 5 HOH A 83 683 84 HOH HOH . E 5 HOH A 84 684 85 HOH HOH . E 5 HOH A 85 685 86 HOH HOH . E 5 HOH A 86 686 87 HOH HOH . E 5 HOH A 87 687 88 HOH HOH . E 5 HOH A 88 688 90 HOH HOH . E 5 HOH A 89 689 91 HOH HOH . E 5 HOH A 90 690 92 HOH HOH . E 5 HOH A 91 691 93 HOH HOH . E 5 HOH A 92 692 94 HOH HOH . E 5 HOH A 93 693 95 HOH HOH . E 5 HOH A 94 694 96 HOH HOH . E 5 HOH A 95 695 97 HOH HOH . E 5 HOH A 96 696 98 HOH HOH . E 5 HOH A 97 697 99 HOH HOH . E 5 HOH A 98 698 100 HOH HOH . E 5 HOH A 99 699 101 HOH HOH . E 5 HOH A 100 700 102 HOH HOH . E 5 HOH A 101 701 103 HOH HOH . E 5 HOH A 102 702 104 HOH HOH . E 5 HOH A 103 703 105 HOH HOH . E 5 HOH A 104 704 106 HOH HOH . E 5 HOH A 105 705 107 HOH HOH . E 5 HOH A 106 706 108 HOH HOH . E 5 HOH A 107 707 109 HOH HOH . E 5 HOH A 108 708 110 HOH HOH . E 5 HOH A 109 709 111 HOH HOH . E 5 HOH A 110 710 112 HOH HOH . E 5 HOH A 111 711 113 HOH HOH . E 5 HOH A 112 712 114 HOH HOH . E 5 HOH A 113 713 115 HOH HOH . E 5 HOH A 114 714 116 HOH HOH . E 5 HOH A 115 715 117 HOH HOH . E 5 HOH A 116 716 118 HOH HOH . E 5 HOH A 117 717 119 HOH HOH . E 5 HOH A 118 718 120 HOH HOH . E 5 HOH A 119 719 121 HOH HOH . E 5 HOH A 120 720 122 HOH HOH . E 5 HOH A 121 721 123 HOH HOH . E 5 HOH A 122 722 124 HOH HOH . E 5 HOH A 123 723 125 HOH HOH . E 5 HOH A 124 724 126 HOH HOH . E 5 HOH A 125 725 127 HOH HOH . E 5 HOH A 126 726 128 HOH HOH . E 5 HOH A 127 727 129 HOH HOH . E 5 HOH A 128 728 130 HOH HOH . E 5 HOH A 129 729 131 HOH HOH . E 5 HOH A 130 730 132 HOH HOH . E 5 HOH A 131 731 133 HOH HOH . E 5 HOH A 132 732 134 HOH HOH . E 5 HOH A 133 733 135 HOH HOH . E 5 HOH A 134 734 136 HOH HOH . E 5 HOH A 135 735 137 HOH HOH . E 5 HOH A 136 736 138 HOH HOH . E 5 HOH A 137 737 139 HOH HOH . E 5 HOH A 138 738 140 HOH HOH . E 5 HOH A 139 739 141 HOH HOH . E 5 HOH A 140 740 142 HOH HOH . E 5 HOH A 141 741 143 HOH HOH . E 5 HOH A 142 742 144 HOH HOH . E 5 HOH A 143 743 145 HOH HOH . E 5 HOH A 144 744 146 HOH HOH . E 5 HOH A 145 745 147 HOH HOH . E 5 HOH A 146 746 148 HOH HOH . E 5 HOH A 147 747 149 HOH HOH . E 5 HOH A 148 748 150 HOH HOH . E 5 HOH A 149 749 151 HOH HOH . E 5 HOH A 150 750 152 HOH HOH . E 5 HOH A 151 751 153 HOH HOH . E 5 HOH A 152 752 154 HOH HOH . E 5 HOH A 153 753 155 HOH HOH . E 5 HOH A 154 754 156 HOH HOH . E 5 HOH A 155 755 157 HOH HOH . E 5 HOH A 156 756 158 HOH HOH . E 5 HOH A 157 757 159 HOH HOH . E 5 HOH A 158 758 160 HOH HOH . E 5 HOH A 159 759 161 HOH HOH . E 5 HOH A 160 760 162 HOH HOH . E 5 HOH A 161 761 163 HOH HOH . E 5 HOH A 162 762 164 HOH HOH . E 5 HOH A 163 763 165 HOH HOH . E 5 HOH A 164 764 166 HOH HOH . E 5 HOH A 165 765 167 HOH HOH . E 5 HOH A 166 766 168 HOH HOH . E 5 HOH A 167 767 169 HOH HOH . E 5 HOH A 168 768 170 HOH HOH . E 5 HOH A 169 769 171 HOH HOH . E 5 HOH A 170 770 172 HOH HOH . E 5 HOH A 171 771 173 HOH HOH . E 5 HOH A 172 772 174 HOH HOH . E 5 HOH A 173 773 175 HOH HOH . E 5 HOH A 174 774 176 HOH HOH . E 5 HOH A 175 775 177 HOH HOH . E 5 HOH A 176 776 178 HOH HOH . E 5 HOH A 177 777 179 HOH HOH . E 5 HOH A 178 778 180 HOH HOH . E 5 HOH A 179 779 181 HOH HOH . E 5 HOH A 180 780 182 HOH HOH . E 5 HOH A 181 781 183 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 S41 . . . C 3 -11.241 3.601 20.939 1 30.34 ? C1 S41 502 A 1 HETATM 2 C C2 S41 . . . C 3 -10.829 4.277 19.758 1 28.97 ? C2 S41 502 A 1 HETATM 3 C C3 S41 . . . C 3 -9.826 3.739 18.93 1 29.24 ? C3 S41 502 A 1 HETATM 4 C C4 S41 . . . C 3 -9.286 2.509 19.246 1 28.94 ? C4 S41 502 A 1 HETATM 5 C C5 S41 . . . C 3 -9.657 1.862 20.44 1 30.99 ? C5 S41 502 A 1 HETATM 6 C C6 S41 . . . C 3 -10.649 2.39 21.278 1 31.01 ? C6 S41 502 A 1 HETATM 7 O O7 S41 . . . C 3 -12.18 4.359 21.536 1 28.83 ? O7 S41 502 A 1 HETATM 8 C C8 S41 . . . C 3 -12.455 5.443 20.785 1 28.03 ? C8 S41 502 A 1 HETATM 9 C C9 S41 . . . C 3 -11.649 5.483 19.701 1 26.96 ? C9 S41 502 A 1 HETATM 10 C C10 S41 . . . C 3 -13.485 6.487 21.141 1 25.31 ? C10 S41 502 A 1 HETATM 11 C C11 S41 . . . C 3 -9.091 0.543 20.736 1 32.73 ? C11 S41 502 A 1 HETATM 12 O O12 S41 . . . C 3 -9.541 4.358 17.75 1 31.95 ? O12 S41 502 A 1 HETATM 13 O O13 S41 . . . C 3 -8.513 -0.041 19.845 1 37.15 ? O13 S41 502 A 1 HETATM 14 N N14 S41 . . . C 3 -9.305 -0.005 21.95 1 30.45 ? N14 S41 502 A 1 HETATM 15 C C15 S41 . . . C 3 -8.286 4.433 17.209 1 33.85 ? C15 S41 502 A 1 HETATM 16 C C16 S41 . . . C 3 -7.114 4.373 17.987 1 32.03 ? C16 S41 502 A 1 HETATM 17 N N17 S41 . . . C 3 -5.934 4.438 17.404 1 31.43 ? N17 S41 502 A 1 HETATM 18 C C18 S41 . . . C 3 -5.844 4.616 16.09 1 35.13 ? C18 S41 502 A 1 HETATM 19 N N19 S41 . . . C 3 -6.93 4.712 15.313 1 33.93 ? N19 S41 502 A 1 HETATM 20 C C20 S41 . . . C 3 -8.142 4.644 15.83 1 33.25 ? C20 S41 502 A 1 HETATM 21 C C21 S41 . . . C 3 -4.492 4.729 15.469 1 37.45 ? C21 S41 502 A 1 HETATM 22 N N22 S41 . . . C 3 -3.745 3.605 15.222 1 38.9 ? N22 S41 502 A 1 HETATM 23 O O23 S41 . . . C 3 -4.087 5.853 15.193 1 35.56 ? O23 S41 502 A 1 HETATM 24 C C24 S41 . . . C 3 -4.259 2.266 15.546 1 37.06 ? C24 S41 502 A 1 HETATM 25 C C25 S41 . . . C 3 -2.423 3.708 14.591 1 40.08 ? C25 S41 502 A 1 HETATM 26 C C26 S41 . . . C 3 -8.899 -1.258 22.4 1 26.67 ? C26 S41 502 A 1 HETATM 27 N N27 S41 . . . C 3 -9.332 -1.581 23.616 1 27.84 ? N27 S41 502 A 1 HETATM 28 C C28 S41 . . . C 3 -9.02 -2.764 24.144 1 29.56 ? C28 S41 502 A 1 HETATM 29 C C29 S41 . . . C 3 -8.257 -3.674 23.417 1 30.25 ? C29 S41 502 A 1 HETATM 30 N N30 S41 . . . C 3 -7.819 -3.364 22.183 1 26.89 ? N30 S41 502 A 1 HETATM 31 C C31 S41 . . . C 3 -8.145 -2.184 21.647 1 25.03 ? C31 S41 502 A 1 HETATM 32 C C32 S41 . . . C 3 -7.956 -5.006 24.058 1 30.95 ? C32 S41 502 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #