data_5JT7 # _model_server_result.job_id iXfPUcjCpgMwZvzo4i6wNw _model_server_result.datetime_utc '2024-10-18 15:27:04' _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 5jt7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 5JT7 # _exptl.entry_id 5JT7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 303.363 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(2-{[2-(morpholin-4-yl)ethyl]amino}-1H-benzimidazol-5-yl)guanidine _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 93.16 _cell.angle_gamma 90 _cell.entry_id 5JT7 _cell.length_a 90.322 _cell.length_b 64.214 _cell.length_c 71.238 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JT7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details 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' 2_755 -x+2,y,-z -1 0 0 0 1 0 0 0 -1 180.644 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 # 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 SG CYS 318 A CYS 318 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc2 A SG CYS 320 A CYS 320 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc3 A SG CYS 323 A CYS 323 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc4 A ND1 HIS 349 A HIS 349 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? # _chem_comp.formula 'C14 H21 N7 O' _chem_comp.formula_weight 303.363 _chem_comp.id 6N2 _chem_comp.mon_nstd_flag . _chem_comp.name N-(2-{[2-(morpholin-4-yl)ethyl]amino}-1H-benzimidazol-5-yl)guanidine _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 C6 N4 6N2 sing 1 n n N4 C5 6N2 sing 2 n n C5 N6 6N2 doub 3 n y C5 N3 6N2 sing 4 n y N6 C12 6N2 sing 5 n y N3 C4 6N2 sing 6 n y C12 C4 6N2 doub 7 n y C12 C13 6N2 sing 8 n y C4 C3 6N2 sing 9 n y C13 C1 6N2 doub 10 n y C3 C2 6N2 doub 11 n y C1 C2 6N2 sing 12 n y C1 N2 6N2 sing 13 n n N2 C 6N2 sing 14 n n C N 6N2 doub 15 n n C N1 6N2 sing 16 n n N1 H1 6N2 sing 17 n n N1 H2 6N2 sing 18 n n C2 H3 6N2 sing 19 n n N3 H4 6N2 sing 20 n n N4 H5 6N2 sing 21 n n C6 H6 6N2 sing 22 n n C6 H7 6N2 sing 23 n n N H9 6N2 sing 24 n n N2 H10 6N2 sing 25 n n C13 H11 6N2 sing 26 n n C3 H12 6N2 sing 27 n n C6 C7 6N2 sing 28 n n C7 N5 6N2 sing 29 n n N5 C9 6N2 sing 30 n n C9 C10 6N2 sing 31 n n C10 O1 6N2 sing 32 n n O1 C14 6N2 sing 33 n n C14 C15 6N2 sing 34 n n C15 N5 6N2 sing 35 n n C7 H8 6N2 sing 36 n n C7 H13 6N2 sing 37 n n C9 H14 6N2 sing 38 n n C9 H15 6N2 sing 39 n n C10 H16 6N2 sing 40 n n C10 H17 6N2 sing 41 n n C14 H18 6N2 sing 42 n n C14 H19 6N2 sing 43 n n C15 H20 6N2 sing 44 n n C15 H21 6N2 sing 45 n n # _atom_sites.entry_id 5JT7 _atom_sites.fract_transf_matrix[1][1] 0.011071 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000611 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015573 _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] 0.014059 _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 1 ZN ZN . C 3 GOL A 1 402 1 GOL GOL . D 3 GOL A 1 403 3 GOL GOL . E 4 6N2 A 1 404 1 6N2 C36 . F 5 HOH A 1 501 55 HOH HOH . F 5 HOH A 2 502 67 HOH HOH . F 5 HOH A 3 503 121 HOH HOH . F 5 HOH A 4 504 167 HOH HOH . F 5 HOH A 5 505 128 HOH HOH . F 5 HOH A 6 506 217 HOH HOH . F 5 HOH A 7 507 31 HOH HOH . F 5 HOH A 8 508 135 HOH HOH . F 5 HOH A 9 509 124 HOH HOH . F 5 HOH A 10 510 79 HOH HOH . F 5 HOH A 11 511 168 HOH HOH . F 5 HOH A 12 512 22 HOH HOH . F 5 HOH A 13 513 331 HOH HOH . F 5 HOH A 14 514 235 HOH HOH . F 5 HOH A 15 515 72 HOH HOH . F 5 HOH A 16 516 155 HOH HOH . F 5 HOH A 17 517 24 HOH HOH . F 5 HOH A 18 518 310 HOH HOH . F 5 HOH A 19 519 8 HOH HOH . F 5 HOH A 20 520 154 HOH HOH . F 5 HOH A 21 521 178 HOH HOH . F 5 HOH A 22 522 40 HOH HOH . F 5 HOH A 23 523 91 HOH HOH . F 5 HOH A 24 524 6 HOH HOH . F 5 HOH A 25 525 99 HOH HOH . F 5 HOH A 26 526 51 HOH HOH . F 5 HOH A 27 527 238 HOH HOH . F 5 HOH A 28 528 186 HOH HOH . F 5 HOH A 29 529 170 HOH HOH . F 5 HOH A 30 530 321 HOH HOH . F 5 HOH A 31 531 2 HOH HOH . F 5 HOH A 32 532 129 HOH HOH . F 5 HOH A 33 533 23 HOH HOH . F 5 HOH A 34 534 182 HOH HOH . F 5 HOH A 35 535 9 HOH HOH . F 5 HOH A 36 536 206 HOH HOH . F 5 HOH A 37 537 53 HOH HOH . F 5 HOH A 38 538 54 HOH HOH . F 5 HOH A 39 539 38 HOH HOH . F 5 HOH A 40 540 220 HOH HOH . F 5 HOH A 41 541 333 HOH HOH . F 5 HOH A 42 542 42 HOH HOH . F 5 HOH A 43 543 82 HOH HOH . F 5 HOH A 44 544 15 HOH HOH . F 5 HOH A 45 545 104 HOH HOH . F 5 HOH A 46 546 174 HOH HOH . F 5 HOH A 47 547 47 HOH HOH . F 5 HOH A 48 548 148 HOH HOH . F 5 HOH A 49 549 56 HOH HOH . F 5 HOH A 50 550 219 HOH HOH . F 5 HOH A 51 551 52 HOH HOH . F 5 HOH A 52 552 247 HOH HOH . F 5 HOH A 53 553 76 HOH HOH . F 5 HOH A 54 554 30 HOH HOH . F 5 HOH A 55 555 92 HOH HOH . F 5 HOH A 56 556 37 HOH HOH . F 5 HOH A 57 557 93 HOH HOH . F 5 HOH A 58 558 195 HOH HOH . F 5 HOH A 59 559 194 HOH HOH . F 5 HOH A 60 560 21 HOH HOH . F 5 HOH A 61 561 35 HOH HOH . F 5 HOH A 62 562 199 HOH HOH . F 5 HOH A 63 563 126 HOH HOH . F 5 HOH A 64 564 213 HOH HOH . F 5 HOH A 65 565 95 HOH HOH . F 5 HOH A 66 566 98 HOH HOH . F 5 HOH A 67 567 3 HOH HOH . F 5 HOH A 68 568 43 HOH HOH . F 5 HOH A 69 569 10 HOH HOH . F 5 HOH A 70 570 115 HOH HOH . F 5 HOH A 71 571 18 HOH HOH . F 5 HOH A 72 572 61 HOH HOH . F 5 HOH A 73 573 26 HOH HOH . F 5 HOH A 74 574 103 HOH HOH . F 5 HOH A 75 575 175 HOH HOH . F 5 HOH A 76 576 20 HOH HOH . F 5 HOH A 77 577 81 HOH HOH . F 5 HOH A 78 578 248 HOH HOH . F 5 HOH A 79 579 298 HOH HOH . F 5 HOH A 80 580 17 HOH HOH . F 5 HOH A 81 581 177 HOH HOH . F 5 HOH A 82 582 74 HOH HOH . F 5 HOH A 83 583 141 HOH HOH . F 5 HOH A 84 584 33 HOH HOH . F 5 HOH A 85 585 83 HOH HOH . F 5 HOH A 86 586 90 HOH HOH . F 5 HOH A 87 587 68 HOH HOH . F 5 HOH A 88 588 136 HOH HOH . F 5 HOH A 89 589 19 HOH HOH . F 5 HOH A 90 590 28 HOH HOH . F 5 HOH A 91 591 13 HOH HOH . F 5 HOH A 92 592 152 HOH HOH . F 5 HOH A 93 593 11 HOH HOH . F 5 HOH A 94 594 308 HOH HOH . F 5 HOH A 95 595 27 HOH HOH . F 5 HOH A 96 596 102 HOH HOH . F 5 HOH A 97 597 45 HOH HOH . F 5 HOH A 98 598 118 HOH HOH . F 5 HOH A 99 599 63 HOH HOH . F 5 HOH A 100 600 94 HOH HOH . F 5 HOH A 101 601 191 HOH HOH . F 5 HOH A 102 602 36 HOH HOH . F 5 HOH A 103 603 49 HOH HOH . F 5 HOH A 104 604 14 HOH HOH . F 5 HOH A 105 605 29 HOH HOH . F 5 HOH A 106 606 84 HOH HOH . F 5 HOH A 107 607 180 HOH HOH . F 5 HOH A 108 608 127 HOH HOH . F 5 HOH A 109 609 299 HOH HOH . F 5 HOH A 110 610 212 HOH HOH . F 5 HOH A 111 611 122 HOH HOH . F 5 HOH A 112 612 34 HOH HOH . F 5 HOH A 113 613 181 HOH HOH . F 5 HOH A 114 614 197 HOH HOH . F 5 HOH A 115 615 125 HOH HOH . F 5 HOH A 116 616 190 HOH HOH . F 5 HOH A 117 617 249 HOH HOH . F 5 HOH A 118 618 77 HOH HOH . F 5 HOH A 119 619 4 HOH HOH . F 5 HOH A 120 620 25 HOH HOH . F 5 HOH A 121 621 105 HOH HOH . F 5 HOH A 122 622 207 HOH HOH . F 5 HOH A 123 623 32 HOH HOH . F 5 HOH A 124 624 7 HOH HOH . F 5 HOH A 125 625 296 HOH HOH . F 5 HOH A 126 626 215 HOH HOH . F 5 HOH A 127 627 87 HOH HOH . F 5 HOH A 128 628 140 HOH HOH . F 5 HOH A 129 629 242 HOH HOH . F 5 HOH A 130 630 58 HOH HOH . F 5 HOH A 131 631 109 HOH HOH . F 5 HOH A 132 632 293 HOH HOH . F 5 HOH A 133 633 144 HOH HOH . F 5 HOH A 134 634 329 HOH HOH . F 5 HOH A 135 635 39 HOH HOH . F 5 HOH A 136 636 240 HOH HOH . F 5 HOH A 137 637 300 HOH HOH . F 5 HOH A 138 638 297 HOH HOH . F 5 HOH A 139 639 318 HOH HOH . F 5 HOH A 140 640 243 HOH HOH . F 5 HOH A 141 641 147 HOH HOH . F 5 HOH A 142 642 89 HOH HOH . F 5 HOH A 143 643 332 HOH HOH . F 5 HOH A 144 644 226 HOH HOH . F 5 HOH A 145 645 302 HOH HOH . F 5 HOH A 146 646 59 HOH HOH . F 5 HOH A 147 647 110 HOH HOH . F 5 HOH A 148 648 64 HOH HOH . F 5 HOH A 149 649 62 HOH HOH . F 5 HOH A 150 650 78 HOH HOH . F 5 HOH A 151 651 311 HOH HOH . F 5 HOH A 152 652 12 HOH HOH . F 5 HOH A 153 653 324 HOH HOH . F 5 HOH A 154 654 69 HOH HOH . F 5 HOH A 155 655 237 HOH HOH . F 5 HOH A 156 656 106 HOH HOH . F 5 HOH A 157 657 96 HOH HOH . F 5 HOH A 158 658 283 HOH HOH . F 5 HOH A 159 659 192 HOH HOH . F 5 HOH A 160 660 246 HOH HOH . F 5 HOH A 161 661 60 HOH HOH . F 5 HOH A 162 662 288 HOH HOH . F 5 HOH A 163 663 70 HOH HOH . F 5 HOH A 164 664 108 HOH HOH . F 5 HOH A 165 665 289 HOH HOH . F 5 HOH A 166 666 304 HOH HOH . F 5 HOH A 167 667 165 HOH HOH . F 5 HOH A 168 668 204 HOH HOH . F 5 HOH A 169 669 172 HOH HOH . F 5 HOH A 170 670 111 HOH HOH . F 5 HOH A 171 671 211 HOH HOH . F 5 HOH A 172 672 133 HOH HOH . F 5 HOH A 173 673 65 HOH HOH . F 5 HOH A 174 674 260 HOH HOH . F 5 HOH A 175 675 322 HOH HOH . F 5 HOH A 176 676 41 HOH HOH . F 5 HOH A 177 677 222 HOH HOH . F 5 HOH A 178 678 189 HOH HOH . F 5 HOH A 179 679 160 HOH HOH . F 5 HOH A 180 680 139 HOH HOH . F 5 HOH A 181 681 292 HOH HOH . F 5 HOH A 182 682 176 HOH HOH . F 5 HOH A 183 683 301 HOH HOH . F 5 HOH A 184 684 328 HOH HOH . F 5 HOH A 185 685 202 HOH HOH . F 5 HOH A 186 686 188 HOH HOH . F 5 HOH A 187 687 100 HOH HOH . F 5 HOH A 188 688 323 HOH HOH . F 5 HOH A 189 689 325 HOH HOH . F 5 HOH A 190 690 163 HOH HOH . F 5 HOH A 191 691 137 HOH HOH . F 5 HOH A 192 692 294 HOH HOH . F 5 HOH A 193 693 214 HOH HOH . F 5 HOH A 194 694 80 HOH HOH . F 5 HOH A 195 695 326 HOH HOH . F 5 HOH A 196 696 173 HOH HOH . F 5 HOH A 197 697 330 HOH HOH . F 5 HOH A 198 698 239 HOH HOH . F 5 HOH A 199 699 208 HOH HOH . F 5 HOH A 200 700 169 HOH HOH . F 5 HOH A 201 701 73 HOH HOH . F 5 HOH A 202 702 85 HOH HOH . F 5 HOH A 203 703 198 HOH HOH . F 5 HOH A 204 704 307 HOH HOH . F 5 HOH A 205 705 327 HOH HOH . F 5 HOH A 206 706 162 HOH HOH . F 5 HOH A 207 707 205 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 N N1 6N2 . . . E 4 104.202 16.559 24.775 0.85 34.56 ? N1 6N2 404 A 1 HETATM 2 C C2 6N2 . . . E 4 107.533 17 21.911 0.85 46.06 ? C2 6N2 404 A 1 HETATM 3 N N3 6N2 . . . E 4 108.591 17.953 18.476 0.85 38.25 ? N3 6N2 404 A 1 HETATM 4 C C4 6N2 . . . E 4 107.964 17.533 19.636 0.85 37.79 ? C4 6N2 404 A 1 HETATM 5 N N4 6N2 . . . E 4 107.914 18.728 16.383 0.85 41.76 ? N4 6N2 404 A 1 HETATM 6 C C5 6N2 . . . E 4 107.61 18.237 17.589 0.85 41.08 ? C5 6N2 404 A 1 HETATM 7 C C6 6N2 . . . E 4 106.942 19.398 15.53 0.85 46.64 ? C6 6N2 404 A 1 HETATM 8 C C 6N2 . . . E 4 105.29 16.829 24.059 0.85 40.88 ? C 6N2 404 A 1 HETATM 9 N N 6N2 . . . E 4 106.552 17.006 24.672 0.85 45.45 ? N 6N2 404 A 1 HETATM 10 N N2 6N2 . . . E 4 105.195 16.941 22.701 0.85 43.32 ? N2 6N2 404 A 1 HETATM 11 C C1 6N2 . . . E 4 106.159 17.069 21.665 0.85 43.48 ? C1 6N2 404 A 1 HETATM 12 C C13 6N2 . . . E 4 105.684 17.304 20.376 0.85 44.43 ? C13 6N2 404 A 1 HETATM 13 C C12 6N2 . . . E 4 106.599 17.575 19.361 0.85 39.54 ? C12 6N2 404 A 1 HETATM 14 C C3 6N2 . . . E 4 108.447 17.217 20.894 0.85 34.89 ? C3 6N2 404 A 1 HETATM 15 N N6 6N2 . . . E 4 106.395 18.019 18.052 0.85 45.18 ? N6 6N2 404 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #