data_5RYX # _model_server_result.job_id oqamJIPX2RpKkHucTdenjg _model_server_result.datetime_utc '2024-11-06 22:38:09' _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 5ryx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5RYX # _exptl.entry_id 5RYX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.253 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N-(2-methoxy-5-methylphenyl)-N'-4H-1,2,4-triazol-4-ylurea" _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 5RYX _cell.length_a 38.74 _cell.length_b 77.41 _cell.length_c 98.77 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5RYX _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,F,G,H,I,J _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H13 N5 O2' _chem_comp.formula_weight 247.253 _chem_comp.id VZS _chem_comp.mon_nstd_flag . _chem_comp.name "N-(2-methoxy-5-methylphenyl)-N'-4H-1,2,4-triazol-4-ylurea" _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 C O VZS sing 394 n n O C1 VZS sing 395 n n C2 C1 VZS doub 396 n y C2 C3 VZS sing 397 n y C1 C7 VZS sing 398 n y C3 C4 VZS doub 399 n y C7 N VZS sing 400 n n C7 C6 VZS doub 401 n y N C8 VZS sing 402 n n C4 C6 VZS sing 403 n y C4 C5 VZS sing 404 n n C10 N2 VZS sing 405 n y C10 N4 VZS doub 406 n y C8 N1 VZS sing 407 n n C8 O1 VZS doub 408 n n N1 N2 VZS sing 409 n n N2 C9 VZS sing 410 n y N4 N3 VZS sing 411 n y C9 N3 VZS doub 412 n y N1 H1 VZS sing 413 n n C5 H2 VZS sing 414 n n C5 H3 VZS sing 415 n n C5 H4 VZS sing 416 n n C6 H5 VZS sing 417 n n C10 H6 VZS sing 418 n n C9 H7 VZS sing 419 n n N H8 VZS sing 420 n n C H9 VZS sing 421 n n C H10 VZS sing 422 n n C H11 VZS sing 423 n n C3 H12 VZS sing 424 n n C2 H13 VZS sing 425 n n # _atom_sites.entry_id 5RYX _atom_sites.fract_transf_matrix[1][1] 0.025813 _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] 0.012918 _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] 0.010125 _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 VZS A 1 401 401 VZS LIG . C 3 DMS A 1 402 1 DMS DMS . D 3 DMS A 1 403 2 DMS DMS . E 4 EDO A 1 404 1 EDO EDO . F 4 EDO A 1 405 2 EDO EDO . G 4 EDO A 1 406 3 EDO EDO . H 4 EDO A 1 407 4 EDO EDO . I 4 EDO A 1 408 6 EDO EDO . J 5 HOH A 1 501 139 HOH HOH . J 5 HOH A 2 502 127 HOH HOH . J 5 HOH A 3 503 145 HOH HOH . J 5 HOH A 4 504 96 HOH HOH . J 5 HOH A 5 505 119 HOH HOH . J 5 HOH A 6 506 138 HOH HOH . J 5 HOH A 7 507 123 HOH HOH . J 5 HOH A 8 508 76 HOH HOH . J 5 HOH A 9 509 9 HOH HOH . J 5 HOH A 10 510 87 HOH HOH . J 5 HOH A 11 511 83 HOH HOH . J 5 HOH A 12 512 43 HOH HOH . J 5 HOH A 13 513 95 HOH HOH . J 5 HOH A 14 514 165 HOH HOH . J 5 HOH A 15 515 116 HOH HOH . J 5 HOH A 16 516 52 HOH HOH . J 5 HOH A 17 517 148 HOH HOH . J 5 HOH A 18 518 107 HOH HOH . J 5 HOH A 19 519 129 HOH HOH . J 5 HOH A 20 520 11 HOH HOH . J 5 HOH A 21 521 160 HOH HOH . J 5 HOH A 22 522 108 HOH HOH . J 5 HOH A 23 523 59 HOH HOH . J 5 HOH A 24 524 5 HOH HOH . J 5 HOH A 25 525 73 HOH HOH . J 5 HOH A 26 526 153 HOH HOH . J 5 HOH A 27 527 10 HOH HOH . J 5 HOH A 28 528 79 HOH HOH . J 5 HOH A 29 529 146 HOH HOH . J 5 HOH A 30 530 51 HOH HOH . J 5 HOH A 31 531 1 HOH HOH . J 5 HOH A 32 532 113 HOH HOH . J 5 HOH A 33 533 97 HOH HOH . J 5 HOH A 34 534 101 HOH HOH . J 5 HOH A 35 535 115 HOH HOH . J 5 HOH A 36 536 109 HOH HOH . J 5 HOH A 37 537 86 HOH HOH . J 5 HOH A 38 538 50 HOH HOH . J 5 HOH A 39 539 28 HOH HOH . J 5 HOH A 40 540 4 HOH HOH . J 5 HOH A 41 541 82 HOH HOH . J 5 HOH A 42 542 133 HOH HOH . J 5 HOH A 43 543 118 HOH HOH . J 5 HOH A 44 544 31 HOH HOH . J 5 HOH A 45 545 89 HOH HOH . J 5 HOH A 46 546 61 HOH HOH . J 5 HOH A 47 547 75 HOH HOH . J 5 HOH A 48 548 142 HOH HOH . J 5 HOH A 49 549 106 HOH HOH . J 5 HOH A 50 550 157 HOH HOH . J 5 HOH A 51 551 94 HOH HOH . J 5 HOH A 52 552 26 HOH HOH . J 5 HOH A 53 553 22 HOH HOH . J 5 HOH A 54 554 124 HOH HOH . J 5 HOH A 55 555 36 HOH HOH . J 5 HOH A 56 556 3 HOH HOH . J 5 HOH A 57 557 81 HOH HOH . J 5 HOH A 58 558 98 HOH HOH . J 5 HOH A 59 559 92 HOH HOH . J 5 HOH A 60 560 35 HOH HOH . J 5 HOH A 61 561 18 HOH HOH . J 5 HOH A 62 562 42 HOH HOH . J 5 HOH A 63 563 150 HOH HOH . J 5 HOH A 64 564 100 HOH HOH . J 5 HOH A 65 565 29 HOH HOH . J 5 HOH A 66 566 60 HOH HOH . J 5 HOH A 67 567 144 HOH HOH . J 5 HOH A 68 568 16 HOH HOH . J 5 HOH A 69 569 67 HOH HOH . J 5 HOH A 70 570 151 HOH HOH . J 5 HOH A 71 571 66 HOH HOH . J 5 HOH A 72 572 24 HOH HOH . J 5 HOH A 73 573 54 HOH HOH . J 5 HOH A 74 574 47 HOH HOH . J 5 HOH A 75 575 58 HOH HOH . J 5 HOH A 76 576 53 HOH HOH . J 5 HOH A 77 577 68 HOH HOH . J 5 HOH A 78 578 90 HOH HOH . J 5 HOH A 79 579 152 HOH HOH . J 5 HOH A 80 580 17 HOH HOH . J 5 HOH A 81 581 32 HOH HOH . J 5 HOH A 82 582 21 HOH HOH . J 5 HOH A 83 583 69 HOH HOH . J 5 HOH A 84 584 41 HOH HOH . J 5 HOH A 85 585 46 HOH HOH . J 5 HOH A 86 586 141 HOH HOH . J 5 HOH A 87 587 143 HOH HOH . J 5 HOH A 88 588 84 HOH HOH . J 5 HOH A 89 589 121 HOH HOH . J 5 HOH A 90 590 40 HOH HOH . J 5 HOH A 91 591 111 HOH HOH . J 5 HOH A 92 592 20 HOH HOH . J 5 HOH A 93 593 8 HOH HOH . J 5 HOH A 94 594 56 HOH HOH . J 5 HOH A 95 595 155 HOH HOH . J 5 HOH A 96 596 70 HOH HOH . J 5 HOH A 97 597 57 HOH HOH . J 5 HOH A 98 598 14 HOH HOH . J 5 HOH A 99 599 30 HOH HOH . J 5 HOH A 100 600 117 HOH HOH . J 5 HOH A 101 601 19 HOH HOH . J 5 HOH A 102 602 37 HOH HOH . J 5 HOH A 103 603 136 HOH HOH . J 5 HOH A 104 604 23 HOH HOH . J 5 HOH A 105 605 44 HOH HOH . J 5 HOH A 106 606 162 HOH HOH . J 5 HOH A 107 607 38 HOH HOH . J 5 HOH A 108 608 128 HOH HOH . J 5 HOH A 109 609 147 HOH HOH . J 5 HOH A 110 610 71 HOH HOH . J 5 HOH A 111 611 135 HOH HOH . J 5 HOH A 112 612 105 HOH HOH . J 5 HOH A 113 613 120 HOH HOH . J 5 HOH A 114 614 85 HOH HOH . J 5 HOH A 115 615 34 HOH HOH . J 5 HOH A 116 616 161 HOH HOH . J 5 HOH A 117 617 110 HOH HOH . J 5 HOH A 118 618 12 HOH HOH . J 5 HOH A 119 619 25 HOH HOH . J 5 HOH A 120 620 156 HOH HOH . J 5 HOH A 121 621 63 HOH HOH . J 5 HOH A 122 622 158 HOH HOH . J 5 HOH A 123 623 7 HOH HOH . J 5 HOH A 124 624 122 HOH HOH . J 5 HOH A 125 625 6 HOH HOH . J 5 HOH A 126 626 2 HOH HOH . J 5 HOH A 127 627 74 HOH HOH . J 5 HOH A 128 628 99 HOH HOH . J 5 HOH A 129 629 154 HOH HOH . J 5 HOH A 130 630 103 HOH HOH . J 5 HOH A 131 631 78 HOH HOH . J 5 HOH A 132 632 13 HOH HOH . J 5 HOH A 133 633 112 HOH HOH . J 5 HOH A 134 634 104 HOH HOH . J 5 HOH A 135 635 65 HOH HOH . J 5 HOH A 136 636 159 HOH HOH . J 5 HOH A 137 637 130 HOH HOH . J 5 HOH A 138 638 91 HOH HOH . J 5 HOH A 139 639 164 HOH HOH . J 5 HOH A 140 640 77 HOH HOH . J 5 HOH A 141 641 149 HOH HOH . J 5 HOH A 142 642 39 HOH HOH . J 5 HOH A 143 643 27 HOH HOH . J 5 HOH A 144 644 15 HOH HOH . J 5 HOH A 145 645 45 HOH HOH . J 5 HOH A 146 646 163 HOH HOH . J 5 HOH A 147 647 137 HOH HOH . J 5 HOH A 148 648 72 HOH HOH . J 5 HOH A 149 649 132 HOH HOH . J 5 HOH A 150 650 93 HOH HOH . J 5 HOH A 151 651 134 HOH HOH . J 5 HOH A 152 652 64 HOH HOH . J 5 HOH A 153 653 33 HOH HOH . J 5 HOH A 154 654 62 HOH HOH . J 5 HOH A 155 655 80 HOH HOH . J 5 HOH A 156 656 48 HOH HOH . J 5 HOH A 157 657 126 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 VZS . . . B 2 -0.327 12.257 -20.536 0.76 13.45 ? N1 VZS 401 A 1 HETATM 2 N N3 VZS . . . B 2 3.104 11.492 -19.897 0.76 13.41 ? N3 VZS 401 A 1 HETATM 3 C C4 VZS . . . B 2 -4.316 10.318 -16.957 0.76 17.59 ? C4 VZS 401 A 1 HETATM 4 C C5 VZS . . . B 2 -4.005 9.485 -15.791 0.76 18.8 ? C5 VZS 401 A 1 HETATM 5 C C6 VZS . . . B 2 -3.254 10.735 -17.7 0.76 17.28 ? C6 VZS 401 A 1 HETATM 6 C C7 VZS . . . B 2 -3.462 11.511 -18.845 0.76 15.73 ? C7 VZS 401 A 1 HETATM 7 C C8 VZS . . . B 2 -1.077 11.969 -19.385 0.76 13.98 ? C8 VZS 401 A 1 HETATM 8 C C10 VZS . . . B 2 1.822 13.309 -20.102 0.76 12.95 ? C10 VZS 401 A 1 HETATM 9 O O1 VZS . . . B 2 -0.59 11.874 -18.276 0.76 14.93 ? O1 VZS 401 A 1 HETATM 10 N N2 VZS . . . B 2 1.036 12.213 -20.326 0.76 13.63 ? N2 VZS 401 A 1 HETATM 11 N N4 VZS . . . B 2 3.09 12.869 -19.832 0.76 13.6 ? N4 VZS 401 A 1 HETATM 12 C C9 VZS . . . B 2 1.871 11.07 -20.191 0.76 13.38 ? C9 VZS 401 A 1 HETATM 13 N N VZS . . . B 2 -2.416 11.883 -19.718 0.76 14.1 ? N VZS 401 A 1 HETATM 14 C C1 VZS . . . B 2 -4.789 11.843 -19.223 0.76 16.2 ? C1 VZS 401 A 1 HETATM 15 O O VZS . . . B 2 -4.838 12.57 -20.396 0.76 16.37 ? O VZS 401 A 1 HETATM 16 C C VZS . . . B 2 -6.079 12.799 -21.089 0.76 16.73 ? C VZS 401 A 1 HETATM 17 C C3 VZS . . . B 2 -5.627 10.669 -17.338 0.76 18.05 ? C3 VZS 401 A 1 HETATM 18 C C2 VZS . . . B 2 -5.852 11.42 -18.45 0.76 16.78 ? C2 VZS 401 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 18 #