data_5VQU # _model_server_result.job_id ALaDYcjSQDlJIzU1S2eZ-A _model_server_result.datetime_utc '2024-11-09 02:03:35' _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 5vqu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 5VQU # _exptl.entry_id 5VQU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 502.494 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(6-cyano-3-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}-4-methylnaphthalen-1-yl)-2-fluoro-N-methylacetamide _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 99.47 _cell.angle_gamma 90 _cell.entry_id 5VQU _cell.length_a 162.66 _cell.length_b 73.81 _cell.length_c 108.95 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VQU _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 author_and_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 # _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 'C27 H23 F N4 O5' _chem_comp.formula_weight 502.494 _chem_comp.id 9JP _chem_comp.mon_nstd_flag . _chem_comp.name N-(6-cyano-3-{2-[2-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)ethoxy]phenoxy}-4-methylnaphthalen-1-yl)-2-fluoro-N-methylacetamide _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 O3 C9 9JP doub 1 n n C8 C7 9JP sing 2 n n C8 N1 9JP sing 3 n n C9 N1 9JP sing 4 n n C9 N2 9JP sing 5 n n C7 O2 9JP sing 6 n n N1 C12 9JP sing 7 n n N2 C10 9JP sing 8 n n C12 C11 9JP doub 9 n n O2 C2 9JP sing 10 n n C10 C11 9JP sing 11 n n C10 O4 9JP doub 12 n n C1 C2 9JP doub 13 n y C1 C6 9JP sing 14 n y C2 C3 9JP sing 15 n y C6 C5 9JP doub 16 n y C3 O1 9JP sing 17 n n C3 C4 9JP doub 18 n y O1 C13 9JP sing 19 n n C5 C4 9JP sing 20 n y C13 C18 9JP doub 21 n y C13 C14 9JP sing 22 n y C18 C17 9JP sing 23 n y C27 N3 9JP sing 24 n n C24 C14 9JP sing 25 n n C14 C15 9JP doub 26 n y C17 N3 9JP sing 27 n n C17 C16 9JP doub 28 n y N3 C25 9JP sing 29 n n C15 C16 9JP sing 30 n y C15 C19 9JP sing 31 n y C25 O5 9JP doub 32 n n C25 C26 9JP sing 33 n n C16 C22 9JP sing 34 n y C19 C20 9JP doub 35 n y C26 F1 9JP sing 36 n n C22 C21 9JP doub 37 n y C20 C21 9JP sing 38 n y C20 C23 9JP sing 39 n n C23 N4 9JP trip 40 n n C4 H1 9JP sing 41 n n C1 H2 9JP sing 42 n n C11 H3 9JP sing 43 n n C12 H4 9JP sing 44 n n C18 H5 9JP sing 45 n n C19 H6 9JP sing 46 n n C21 H7 9JP sing 47 n n C22 H8 9JP sing 48 n n C24 H9 9JP sing 49 n n C24 H10 9JP sing 50 n n C24 H11 9JP sing 51 n n C26 H12 9JP sing 52 n n C26 H13 9JP sing 53 n n C27 H14 9JP sing 54 n n C27 H15 9JP sing 55 n n C27 H16 9JP sing 56 n n C5 H17 9JP sing 57 n n C6 H18 9JP sing 58 n n C7 H19 9JP sing 59 n n C7 H20 9JP sing 60 n n C8 H21 9JP sing 61 n n C8 H22 9JP sing 62 n n N2 H23 9JP sing 63 n n # _atom_sites.entry_id 5VQU _atom_sites.fract_transf_matrix[1][1] 0.006148 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001026 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013548 _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] 0.009305 _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 C 3 9JP A 1 601 1 9JP 683 . D 4 SO4 A 1 602 1 SO4 SO4 . E 5 HOH A 1 701 95 HOH HOH . E 5 HOH A 2 702 89 HOH HOH . E 5 HOH A 3 703 30 HOH HOH . E 5 HOH A 4 704 11 HOH HOH . E 5 HOH A 5 705 103 HOH HOH . E 5 HOH A 6 706 94 HOH HOH . E 5 HOH A 7 707 27 HOH HOH . E 5 HOH A 8 708 23 HOH HOH . E 5 HOH A 9 709 1 HOH HOH . E 5 HOH A 10 710 6 HOH HOH . E 5 HOH A 11 711 64 HOH HOH . E 5 HOH A 12 712 41 HOH HOH . E 5 HOH A 13 713 7 HOH HOH . E 5 HOH A 14 714 68 HOH HOH . E 5 HOH A 15 715 51 HOH HOH . E 5 HOH A 16 716 106 HOH HOH . E 5 HOH A 17 717 93 HOH HOH . E 5 HOH A 18 718 65 HOH HOH . E 5 HOH A 19 719 4 HOH HOH . E 5 HOH A 20 720 37 HOH HOH . E 5 HOH A 21 721 70 HOH HOH . E 5 HOH A 22 722 26 HOH HOH . E 5 HOH A 23 723 96 HOH HOH . E 5 HOH A 24 724 44 HOH HOH . E 5 HOH A 25 725 66 HOH HOH . E 5 HOH A 26 726 74 HOH HOH . E 5 HOH A 27 727 31 HOH HOH . E 5 HOH A 28 728 9 HOH HOH . E 5 HOH A 29 729 90 HOH HOH . E 5 HOH A 30 730 10 HOH HOH . E 5 HOH A 31 731 18 HOH HOH . E 5 HOH A 32 732 73 HOH HOH . E 5 HOH A 33 733 50 HOH HOH . E 5 HOH A 34 734 48 HOH HOH . E 5 HOH A 35 735 19 HOH HOH . E 5 HOH A 36 736 34 HOH HOH . E 5 HOH A 37 737 80 HOH HOH . E 5 HOH A 38 738 84 HOH HOH . E 5 HOH A 39 739 67 HOH HOH . E 5 HOH A 40 740 13 HOH HOH . E 5 HOH A 41 741 36 HOH HOH . E 5 HOH A 42 742 46 HOH HOH . E 5 HOH A 43 743 12 HOH HOH . E 5 HOH A 44 744 105 HOH HOH . E 5 HOH A 45 745 47 HOH HOH . E 5 HOH A 46 746 8 HOH HOH . E 5 HOH A 47 747 3 HOH HOH . E 5 HOH A 48 748 101 HOH HOH . E 5 HOH A 49 749 86 HOH HOH . E 5 HOH A 50 750 14 HOH HOH . E 5 HOH A 51 751 62 HOH HOH . E 5 HOH A 52 752 61 HOH HOH . E 5 HOH A 53 753 88 HOH HOH . E 5 HOH A 54 754 108 HOH HOH . E 5 HOH A 55 755 58 HOH HOH . E 5 HOH A 56 756 91 HOH HOH . E 5 HOH A 57 757 15 HOH HOH . E 5 HOH A 58 758 102 HOH HOH . E 5 HOH A 59 759 85 HOH HOH . E 5 HOH A 60 760 29 HOH HOH . E 5 HOH A 61 761 45 HOH HOH . E 5 HOH A 62 762 75 HOH HOH . E 5 HOH A 63 763 53 HOH HOH . F 5 HOH B 1 501 97 HOH HOH . F 5 HOH B 2 502 40 HOH HOH . F 5 HOH B 3 503 42 HOH HOH . F 5 HOH B 4 504 83 HOH HOH . F 5 HOH B 5 505 43 HOH HOH . F 5 HOH B 6 506 63 HOH HOH . F 5 HOH B 7 507 38 HOH HOH . F 5 HOH B 8 508 24 HOH HOH . F 5 HOH B 9 509 59 HOH HOH . F 5 HOH B 10 510 54 HOH HOH . F 5 HOH B 11 511 5 HOH HOH . F 5 HOH B 12 512 35 HOH HOH . F 5 HOH B 13 513 55 HOH HOH . F 5 HOH B 14 514 98 HOH HOH . F 5 HOH B 15 515 32 HOH HOH . F 5 HOH B 16 516 60 HOH HOH . F 5 HOH B 17 517 25 HOH HOH . F 5 HOH B 18 518 79 HOH HOH . F 5 HOH B 19 519 16 HOH HOH . F 5 HOH B 20 520 57 HOH HOH . F 5 HOH B 21 521 76 HOH HOH . F 5 HOH B 22 522 52 HOH HOH . F 5 HOH B 23 523 17 HOH HOH . F 5 HOH B 24 524 2 HOH HOH . F 5 HOH B 25 525 21 HOH HOH . F 5 HOH B 26 526 22 HOH HOH . F 5 HOH B 27 527 49 HOH HOH . F 5 HOH B 28 528 87 HOH HOH . F 5 HOH B 29 529 92 HOH HOH . F 5 HOH B 30 530 71 HOH HOH . F 5 HOH B 31 531 39 HOH HOH . F 5 HOH B 32 532 28 HOH HOH . F 5 HOH B 33 533 107 HOH HOH . F 5 HOH B 34 534 77 HOH HOH . F 5 HOH B 35 535 69 HOH HOH . F 5 HOH B 36 536 104 HOH HOH . F 5 HOH B 37 537 20 HOH HOH . F 5 HOH B 38 538 72 HOH HOH . F 5 HOH B 39 539 82 HOH HOH . F 5 HOH B 40 540 99 HOH HOH . F 5 HOH B 41 541 81 HOH HOH . F 5 HOH B 42 542 56 HOH HOH . F 5 HOH B 43 543 33 HOH HOH . F 5 HOH B 44 544 78 HOH HOH . F 5 HOH B 45 545 100 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 9JP . . . C 3 847.843 -30.952 145.344 1 47.54 ? C4 9JP 601 A 1 HETATM 2 N N1 9JP . . . C 3 845.751 -33.95 140.699 1 45.98 ? N1 9JP 601 A 1 HETATM 3 C C1 9JP . . . C 3 848.757 -30.903 142.705 1 43.76 ? C1 9JP 601 A 1 HETATM 4 C C10 9JP . . . C 3 845.24 -36.323 142.132 1 43.25 ? C10 9JP 601 A 1 HETATM 5 C C11 9JP . . . C 3 844.441 -35.13 142.33 1 45.64 ? C11 9JP 601 A 1 HETATM 6 C C12 9JP . . . C 3 844.733 -34.026 141.616 1 46.37 ? C12 9JP 601 A 1 HETATM 7 C C13 9JP . . . C 3 844.85 -31.035 145.516 1 49.87 ? C13 9JP 601 A 1 HETATM 8 C C14 9JP . . . C 3 844.184 -31.941 146.342 1 47.58 ? C14 9JP 601 A 1 HETATM 9 C C15 9JP . . . C 3 843.329 -31.479 147.385 1 43.18 ? C15 9JP 601 A 1 HETATM 10 C C16 9JP . . . C 3 843.155 -30.07 147.57 1 48.19 ? C16 9JP 601 A 1 HETATM 11 C C17 9JP . . . C 3 843.85 -29.167 146.701 1 49.01 ? C17 9JP 601 A 1 HETATM 12 C C18 9JP . . . C 3 844.673 -29.666 145.692 1 45.33 ? C18 9JP 601 A 1 HETATM 13 C C19 9JP . . . C 3 842.641 -32.38 148.247 1 41.66 ? C19 9JP 601 A 1 HETATM 14 C C2 9JP . . . C 3 847.423 -31.221 142.965 1 43.29 ? C2 9JP 601 A 1 HETATM 15 C C20 9JP . . . C 3 841.812 -31.913 149.26 1 49.57 ? C20 9JP 601 A 1 HETATM 16 C C21 9JP . . . C 3 841.646 -30.545 149.44 1 49.44 ? C21 9JP 601 A 1 HETATM 17 C C22 9JP . . . C 3 842.297 -29.632 148.618 1 53.27 ? C22 9JP 601 A 1 HETATM 18 C C23 9JP . . . C 3 841.121 -32.856 150.129 1 52.64 ? C23 9JP 601 A 1 HETATM 19 C C24 9JP . . . C 3 844.373 -33.444 146.141 1 48.4 ? C24 9JP 601 A 1 HETATM 20 C C25 9JP . . . C 3 844.597 -27.031 147.561 1 58.61 ? C25 9JP 601 A 1 HETATM 21 C C26 9JP . . . C 3 845.736 -27.742 148.309 1 51.28 ? C26 9JP 601 A 1 HETATM 22 C C27 9JP . . . C 3 842.617 -27.169 146.066 1 55.4 ? C27 9JP 601 A 1 HETATM 23 C C3 9JP . . . C 3 846.963 -31.239 144.293 1 44.57 ? C3 9JP 601 A 1 HETATM 24 C C5 9JP . . . C 3 849.174 -30.637 145.069 1 51.32 ? C5 9JP 601 A 1 HETATM 25 C C6 9JP . . . C 3 849.63 -30.613 143.753 1 46.18 ? C6 9JP 601 A 1 HETATM 26 C C7 9JP . . . C 3 847.14 -31.9 140.622 1 45.23 ? C7 9JP 601 A 1 HETATM 27 C C8 9JP . . . C 3 846.044 -32.729 139.94 1 47.39 ? C8 9JP 601 A 1 HETATM 28 C C9 9JP . . . C 3 846.555 -35.049 140.464 1 42.59 ? C9 9JP 601 A 1 HETATM 29 F F1 9JP . . . C 3 846.283 -26.931 149.215 1 57.63 ? F1 9JP 601 A 1 HETATM 30 N N2 9JP . . . C 3 846.228 -36.156 141.207 1 41.5 ? N2 9JP 601 A 1 HETATM 31 N N3 9JP . . . C 3 843.729 -27.767 146.811 1 59.24 ? N3 9JP 601 A 1 HETATM 32 N N4 9JP . . . C 3 840.573 -33.606 150.819 1 53.56 ? N4 9JP 601 A 1 HETATM 33 O O1 9JP . . . C 3 845.648 -31.563 144.525 1 49.66 ? O1 9JP 601 A 1 HETATM 34 O O2 9JP . . . C 3 846.623 -31.493 141.873 1 45.51 ? O2 9JP 601 A 1 HETATM 35 O O3 9JP . . . C 3 847.494 -35.09 139.667 1 41.67 ? O3 9JP 601 A 1 HETATM 36 O O4 9JP . . . C 3 845.053 -37.378 142.731 1 48.38 ? O4 9JP 601 A 1 HETATM 37 O O5 9JP . . . C 3 844.503 -25.803 147.666 1 64.81 ? O5 9JP 601 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 23 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 37 #