data_3WE4 # _model_server_result.job_id CatKFsaXzfyH1HQzmQIF9Q _model_server_result.datetime_utc '2024-11-22 13:02:14' _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 3we4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 3WE4 # _exptl.entry_id 3WE4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 390.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-{[4-(5-ethylpyrimidin-4-yl)piperazin-1-yl]methyl}-5-(trifluoromethyl)-1H-benzimidazole _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 3WE4 _cell.length_a 70.93 _cell.length_b 70.93 _cell.length_c 146.861 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WE4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 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 _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 covale ? covale1 A C HIS 181 A HIS 251 1_555 A N TPO 182 A TPO 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C TPO 182 A TPO 252 1_555 A N PHE 183 A PHE 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? metalc ? metalc1 A SG CYS 170 A CYS 240 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? metalc ? metalc2 A ND1 HIS 175 A HIS 245 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc3 A ND1 HIS 181 A HIS 251 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc4 A SG CYS 184 A CYS 254 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? # _chem_comp.formula 'C19 H21 F3 N6' _chem_comp.formula_weight 390.405 _chem_comp.id 5FI _chem_comp.mon_nstd_flag . _chem_comp.name 2-{[4-(5-ethylpyrimidin-4-yl)piperazin-1-yl]methyl}-5-(trifluoromethyl)-1H-benzimidazole _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 FAB CBB 5FI sing 1 n n FAD CBB 5FI sing 2 n n CBB FAC 5FI sing 3 n n CBB CAU 5FI sing 4 n n CAU CAI 5FI doub 5 n y CAU CAE 5FI sing 6 n y CAI CAX 5FI sing 7 n y CAE CAF 5FI doub 8 n y CAX NAR 5FI sing 9 n y CAX CAY 5FI doub 10 n y NAR CAV 5FI doub 11 n y CAA CAJ 5FI sing 12 n n CAJ C5 5FI sing 13 n n CAF CAY 5FI sing 14 n y CAY NAS 5FI sing 15 n y CAV NAS 5FI sing 16 n y CAV CAO 5FI sing 17 n n CAM CAK 5FI sing 18 n n CAM NBA 5FI sing 19 n n C5 C6 5FI doub 20 n y C5 C4 5FI sing 21 n y CAO NAZ 5FI sing 22 n n CAK NAZ 5FI sing 23 n n C6 N1 5FI sing 24 n y NAZ CAL 5FI sing 25 n n NBA C4 5FI sing 26 n n NBA CAN 5FI sing 27 n n C4 N3 5FI doub 28 n y N1 C2 5FI doub 29 n y CAN CAL 5FI sing 30 n n N3 C2 5FI sing 31 n y C6 H1 5FI sing 32 n n CAE H2 5FI sing 33 n n CAF H3 5FI sing 34 n n CAI H4 5FI sing 35 n n CAO H7 5FI sing 36 n n CAO H8 5FI sing 37 n n CAL H10 5FI sing 38 n n CAL H11 5FI sing 39 n n CAN H12 5FI sing 40 n n CAN H13 5FI sing 41 n n CAK H14 5FI sing 42 n n CAK H15 5FI sing 43 n n CAM H16 5FI sing 44 n n CAM H17 5FI sing 45 n n CAJ H18 5FI sing 46 n n CAJ H19 5FI sing 47 n n CAA H20 5FI sing 48 n n CAA H21 5FI sing 49 n n CAA H22 5FI sing 50 n n C2 H23 5FI sing 51 n n NAS H5 5FI sing 52 n n # _atom_sites.entry_id 3WE4 _atom_sites.fract_transf_matrix[1][1] 0.014098 _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] 0.014098 _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] 0.006809 _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 ZN A 1 401 401 ZN ZN . C 3 5FI A 1 402 501 5FI 5FI . D 4 HOH A 1 501 1 HOH HOH . D 4 HOH A 2 502 2 HOH HOH . D 4 HOH A 3 503 3 HOH HOH . D 4 HOH A 4 504 4 HOH HOH . D 4 HOH A 5 505 5 HOH HOH . D 4 HOH A 6 506 6 HOH HOH . D 4 HOH A 7 507 7 HOH HOH . D 4 HOH A 8 508 8 HOH HOH . D 4 HOH A 9 509 9 HOH HOH . D 4 HOH A 10 510 10 HOH HOH . D 4 HOH A 11 511 11 HOH HOH . D 4 HOH A 12 512 12 HOH HOH . D 4 HOH A 13 513 13 HOH HOH . D 4 HOH A 14 514 14 HOH HOH . D 4 HOH A 15 515 15 HOH HOH . D 4 HOH A 16 516 16 HOH HOH . D 4 HOH A 17 517 17 HOH HOH . D 4 HOH A 18 518 18 HOH HOH . D 4 HOH A 19 519 19 HOH HOH . D 4 HOH A 20 520 20 HOH HOH . D 4 HOH A 21 521 21 HOH HOH . D 4 HOH A 22 522 22 HOH HOH . D 4 HOH A 23 523 23 HOH HOH . D 4 HOH A 24 524 24 HOH HOH . D 4 HOH A 25 525 25 HOH HOH . D 4 HOH A 26 526 26 HOH HOH . D 4 HOH A 27 527 27 HOH HOH . D 4 HOH A 28 528 28 HOH HOH . D 4 HOH A 29 529 29 HOH HOH . D 4 HOH A 30 530 30 HOH HOH . D 4 HOH A 31 531 31 HOH HOH . D 4 HOH A 32 532 32 HOH HOH . D 4 HOH A 33 533 33 HOH HOH . D 4 HOH A 34 534 34 HOH HOH . D 4 HOH A 35 535 35 HOH HOH . D 4 HOH A 36 536 36 HOH HOH . D 4 HOH A 37 537 37 HOH HOH . D 4 HOH A 38 538 38 HOH HOH . D 4 HOH A 39 539 39 HOH HOH . D 4 HOH A 40 540 40 HOH HOH . D 4 HOH A 41 541 41 HOH HOH . D 4 HOH A 42 542 42 HOH HOH . D 4 HOH A 43 543 43 HOH HOH . D 4 HOH A 44 544 44 HOH HOH . D 4 HOH A 45 545 45 HOH HOH . D 4 HOH A 46 546 46 HOH HOH . D 4 HOH A 47 547 47 HOH HOH . D 4 HOH A 48 548 48 HOH HOH . D 4 HOH A 49 549 49 HOH HOH . D 4 HOH A 50 550 50 HOH HOH . D 4 HOH A 51 551 51 HOH HOH . D 4 HOH A 52 552 52 HOH HOH . D 4 HOH A 53 553 53 HOH HOH . D 4 HOH A 54 554 54 HOH HOH . D 4 HOH A 55 555 55 HOH HOH . D 4 HOH A 56 556 56 HOH HOH . D 4 HOH A 57 557 57 HOH HOH . D 4 HOH A 58 558 58 HOH HOH . D 4 HOH A 59 559 59 HOH HOH . D 4 HOH A 60 560 60 HOH HOH . D 4 HOH A 61 561 61 HOH HOH . D 4 HOH A 62 562 62 HOH HOH . D 4 HOH A 63 563 63 HOH HOH . D 4 HOH A 64 564 64 HOH HOH . D 4 HOH A 65 565 65 HOH HOH . D 4 HOH A 66 566 66 HOH HOH . D 4 HOH A 67 567 67 HOH HOH . D 4 HOH A 68 568 68 HOH HOH . D 4 HOH A 69 569 69 HOH HOH . D 4 HOH A 70 570 70 HOH HOH . D 4 HOH A 71 571 71 HOH HOH . D 4 HOH A 72 572 72 HOH HOH . D 4 HOH A 73 573 73 HOH HOH . D 4 HOH A 74 574 74 HOH HOH . D 4 HOH A 75 575 75 HOH HOH . D 4 HOH A 76 576 76 HOH HOH . D 4 HOH A 77 577 77 HOH HOH . D 4 HOH A 78 578 78 HOH HOH . D 4 HOH A 79 579 79 HOH HOH . D 4 HOH A 80 580 80 HOH HOH . D 4 HOH A 81 581 81 HOH HOH . D 4 HOH A 82 582 82 HOH HOH . D 4 HOH A 83 583 83 HOH HOH . D 4 HOH A 84 584 84 HOH HOH . D 4 HOH A 85 585 85 HOH HOH . D 4 HOH A 86 586 86 HOH HOH . D 4 HOH A 87 587 87 HOH HOH . D 4 HOH A 88 588 88 HOH HOH . D 4 HOH A 89 589 89 HOH HOH . D 4 HOH A 90 590 90 HOH HOH . D 4 HOH A 91 591 91 HOH HOH . D 4 HOH A 92 592 92 HOH HOH . D 4 HOH A 93 593 93 HOH HOH . D 4 HOH A 94 594 94 HOH HOH . D 4 HOH A 95 595 95 HOH HOH . D 4 HOH A 96 596 96 HOH HOH . D 4 HOH A 97 597 97 HOH HOH . D 4 HOH A 98 598 98 HOH HOH . D 4 HOH A 99 599 99 HOH HOH . D 4 HOH A 100 600 100 HOH HOH . D 4 HOH A 101 601 101 HOH HOH . D 4 HOH A 102 602 102 HOH HOH . D 4 HOH A 103 603 103 HOH HOH . D 4 HOH A 104 604 104 HOH HOH . D 4 HOH A 105 605 105 HOH HOH . D 4 HOH A 106 606 106 HOH HOH . D 4 HOH A 107 607 107 HOH HOH . D 4 HOH A 108 608 108 HOH HOH . D 4 HOH A 109 609 109 HOH HOH . D 4 HOH A 110 610 110 HOH HOH . D 4 HOH A 111 611 111 HOH HOH . D 4 HOH A 112 612 112 HOH HOH . D 4 HOH A 113 613 113 HOH HOH . D 4 HOH A 114 614 114 HOH HOH . D 4 HOH A 115 615 115 HOH HOH . D 4 HOH A 116 616 116 HOH HOH . D 4 HOH A 117 617 117 HOH HOH . D 4 HOH A 118 618 118 HOH HOH . D 4 HOH A 119 619 119 HOH HOH . D 4 HOH A 120 620 120 HOH HOH . D 4 HOH A 121 621 121 HOH HOH . D 4 HOH A 122 622 122 HOH HOH . D 4 HOH A 123 623 123 HOH HOH . D 4 HOH A 124 624 124 HOH HOH . D 4 HOH A 125 625 125 HOH HOH . D 4 HOH A 126 626 126 HOH HOH . D 4 HOH A 127 627 127 HOH HOH . D 4 HOH A 128 628 128 HOH HOH . D 4 HOH A 129 629 129 HOH HOH . D 4 HOH A 130 630 130 HOH HOH . D 4 HOH A 131 631 131 HOH HOH . D 4 HOH A 132 632 132 HOH HOH . D 4 HOH A 133 633 133 HOH HOH . D 4 HOH A 134 634 134 HOH HOH . D 4 HOH A 135 635 135 HOH HOH . D 4 HOH A 136 636 136 HOH HOH . D 4 HOH A 137 637 137 HOH HOH . D 4 HOH A 138 638 138 HOH HOH . D 4 HOH A 139 639 139 HOH HOH . D 4 HOH A 140 640 140 HOH HOH . D 4 HOH A 141 641 141 HOH HOH . D 4 HOH A 142 642 142 HOH HOH . D 4 HOH A 143 643 143 HOH HOH . D 4 HOH A 144 644 144 HOH HOH . D 4 HOH A 145 645 145 HOH HOH . D 4 HOH A 146 646 146 HOH HOH . D 4 HOH A 147 647 147 HOH HOH . D 4 HOH A 148 648 148 HOH HOH . D 4 HOH A 149 649 149 HOH HOH . D 4 HOH A 150 650 150 HOH HOH . D 4 HOH A 151 651 151 HOH HOH . D 4 HOH A 152 652 152 HOH HOH . D 4 HOH A 153 653 153 HOH HOH . D 4 HOH A 154 654 154 HOH HOH . D 4 HOH A 155 655 155 HOH HOH . D 4 HOH A 156 656 156 HOH HOH . D 4 HOH A 157 657 157 HOH HOH . D 4 HOH A 158 658 158 HOH HOH . D 4 HOH A 159 659 159 HOH HOH . D 4 HOH A 160 660 160 HOH HOH . D 4 HOH A 161 661 161 HOH HOH . D 4 HOH A 162 662 162 HOH HOH . D 4 HOH A 163 663 163 HOH HOH . D 4 HOH A 164 664 164 HOH HOH . D 4 HOH A 165 665 165 HOH HOH . D 4 HOH A 166 666 166 HOH HOH . D 4 HOH A 167 667 167 HOH HOH . D 4 HOH A 168 668 168 HOH HOH . D 4 HOH A 169 669 169 HOH HOH . D 4 HOH A 170 670 170 HOH HOH . D 4 HOH A 171 671 171 HOH HOH . D 4 HOH A 172 672 172 HOH HOH . D 4 HOH A 173 673 173 HOH HOH . D 4 HOH A 174 674 174 HOH HOH . D 4 HOH A 175 675 175 HOH HOH . D 4 HOH A 176 676 176 HOH HOH . D 4 HOH A 177 677 177 HOH HOH . D 4 HOH A 178 678 178 HOH HOH . D 4 HOH A 179 679 179 HOH HOH . D 4 HOH A 180 680 180 HOH HOH . D 4 HOH A 181 681 181 HOH HOH . D 4 HOH A 182 682 182 HOH HOH . D 4 HOH A 183 683 183 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 C4 5FI . . . C 3 -14.428 10.103 -14.414 1 30.59 ? C4 5FI 402 A 1 HETATM 2 C C5 5FI . . . C 3 -14.171 8.899 -13.694 1 40.3 ? C5 5FI 402 A 1 HETATM 3 C C6 5FI . . . C 3 -14.4 7.726 -14.385 1 37.87 ? C6 5FI 402 A 1 HETATM 4 N N1 5FI . . . C 3 -14.811 7.693 -15.647 1 31.78 ? N1 5FI 402 A 1 HETATM 5 N N3 5FI . . . C 3 -14.855 10.073 -15.691 1 39.04 ? N3 5FI 402 A 1 HETATM 6 F FAB 5FI . . . C 3 -6.554 15.755 -9.575 1 50.61 ? FAB 5FI 402 A 1 HETATM 7 C CBB 5FI . . . C 3 -7.575 16.412 -9.103 1 47.52 ? CBB 5FI 402 A 1 HETATM 8 F FAC 5FI . . . C 3 -7.132 17.653 -8.87 1 51.14 ? FAC 5FI 402 A 1 HETATM 9 F FAD 5FI . . . C 3 -7.772 15.927 -7.874 1 48.54 ? FAD 5FI 402 A 1 HETATM 10 C CAU 5FI . . . C 3 -8.779 16.398 -10.028 1 41.22 ? CAU 5FI 402 A 1 HETATM 11 C CAE 5FI . . . C 3 -8.652 17.136 -11.212 1 35.94 ? CAE 5FI 402 A 1 HETATM 12 C CAF 5FI . . . C 3 -9.674 17.231 -12.119 1 44.48 ? CAF 5FI 402 A 1 HETATM 13 C CAI 5FI . . . C 3 -9.932 15.737 -9.676 1 39.64 ? CAI 5FI 402 A 1 HETATM 14 C CAX 5FI . . . C 3 -10.986 15.826 -10.599 1 41.19 ? CAX 5FI 402 A 1 HETATM 15 C CAY 5FI . . . C 3 -10.851 16.57 -11.796 1 40.29 ? CAY 5FI 402 A 1 HETATM 16 N NAS 5FI . . . C 3 -12.05 16.446 -12.449 1 39.44 ? NAS 5FI 402 A 1 HETATM 17 N NAR 5FI . . . C 3 -12.253 15.263 -10.531 1 33.93 ? NAR 5FI 402 A 1 HETATM 18 C CAV 5FI . . . C 3 -12.876 15.649 -11.625 1 35.4 ? CAV 5FI 402 A 1 HETATM 19 C CAO 5FI . . . C 3 -14.255 15.328 -12.072 1 44.48 ? CAO 5FI 402 A 1 HETATM 20 N NAZ 5FI . . . C 3 -14.545 14.152 -12.889 1 44.34 ? NAZ 5FI 402 A 1 HETATM 21 C CAL 5FI . . . C 3 -14.42 13.009 -11.958 1 33.47 ? CAL 5FI 402 A 1 HETATM 22 C CAN 5FI . . . C 3 -14.963 11.749 -12.622 1 45.33 ? CAN 5FI 402 A 1 HETATM 23 C CAK 5FI . . . C 3 -13.7 13.851 -14.063 1 34.65 ? CAK 5FI 402 A 1 HETATM 24 C CAM 5FI . . . C 3 -14.199 12.533 -14.718 1 27.89 ? CAM 5FI 402 A 1 HETATM 25 N NBA 5FI . . . C 3 -14.259 11.387 -13.857 1 38.22 ? NBA 5FI 402 A 1 HETATM 26 C CAJ 5FI . . . C 3 -13.696 8.805 -12.283 1 36.77 ? CAJ 5FI 402 A 1 HETATM 27 C CAA 5FI . . . C 3 -12.293 9.345 -12.057 1 50.29 ? CAA 5FI 402 A 1 HETATM 28 C C2 5FI . . . C 3 -15.026 8.877 -16.235 1 27.64 ? C2 5FI 402 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #