data_5DEL # _model_server_result.job_id hMok5Zo-2bm8mnk6zcpkXw _model_server_result.datetime_utc '2024-10-18 04:21:45' _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 5del # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":603}' # _entry.id 5DEL # _exptl.entry_id 5DEL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 325.147 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(3,5-dichlorophenyl)-2-methyl-3-nitrobenzamide _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 120 _cell.entry_id 5DEL _cell.length_a 85.046 _cell.length_b 85.046 _cell.length_c 137.704 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DEL _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64' # _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 _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H10 Cl2 N2 O3' _chem_comp.formula_weight 325.147 _chem_comp.id D59 _chem_comp.mon_nstd_flag . _chem_comp.name N-(3,5-dichlorophenyl)-2-methyl-3-nitrobenzamide _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 N2 D59 sing 83 n n C14 C9 D59 sing 84 n n O2 N2 D59 doub 85 n n N2 C10 D59 sing 86 n n C9 C10 D59 doub 87 n y C9 C8 D59 sing 88 n y C10 C11 D59 sing 89 n y C8 C7 D59 sing 90 n n C8 C13 D59 doub 91 n y C11 C12 D59 doub 92 n y C7 O1 D59 doub 93 n n C7 N1 D59 sing 94 n n N1 C3 D59 sing 95 n n C13 C12 D59 sing 96 n y C3 C2 D59 doub 97 n y C3 C4 D59 sing 98 n y C2 C1 D59 sing 99 n y C4 C5 D59 doub 100 n y C1 CL1 D59 sing 101 n n C1 C6 D59 doub 102 n y C5 C6 D59 sing 103 n y C5 CL2 D59 sing 104 n n C2 H1 D59 sing 105 n n C6 H2 D59 sing 106 n n C4 H3 D59 sing 107 n n N1 H4 D59 sing 108 n n C14 H5 D59 sing 109 n n C14 H6 D59 sing 110 n n C14 H7 D59 sing 111 n n C13 H8 D59 sing 112 n n C12 H9 D59 sing 113 n n C11 H10 D59 sing 114 n n # _atom_sites.entry_id 5DEL _atom_sites.fract_transf_matrix[1][1] 0.011758 _atom_sites.fract_transf_matrix[1][2] 0.006789 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013577 _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] 0.007262 _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 FMN A 1 601 1002 FMN FMN . C 3 ORO A 1 602 1003 ORO ORO . D 4 D59 A 1 603 1004 D59 D59 . E 5 GOL A 1 604 1005 GOL GOL . F 6 LDA A 1 605 1006 LDA LDA . G 5 GOL A 1 606 1007 GOL GOL . H 7 HOH A 1 701 154 HOH HOH . H 7 HOH A 2 702 164 HOH HOH . H 7 HOH A 3 703 90 HOH HOH . H 7 HOH A 4 704 74 HOH HOH . H 7 HOH A 5 705 48 HOH HOH . H 7 HOH A 6 706 19 HOH HOH . H 7 HOH A 7 707 60 HOH HOH . H 7 HOH A 8 708 61 HOH HOH . H 7 HOH A 9 709 85 HOH HOH . H 7 HOH A 10 710 9 HOH HOH . H 7 HOH A 11 711 54 HOH HOH . H 7 HOH A 12 712 141 HOH HOH . H 7 HOH A 13 713 137 HOH HOH . H 7 HOH A 14 714 15 HOH HOH . H 7 HOH A 15 715 37 HOH HOH . H 7 HOH A 16 716 94 HOH HOH . H 7 HOH A 17 717 130 HOH HOH . H 7 HOH A 18 718 73 HOH HOH . H 7 HOH A 19 719 72 HOH HOH . H 7 HOH A 20 720 11 HOH HOH . H 7 HOH A 21 721 62 HOH HOH . H 7 HOH A 22 722 31 HOH HOH . H 7 HOH A 23 723 12 HOH HOH . H 7 HOH A 24 724 126 HOH HOH . H 7 HOH A 25 725 41 HOH HOH . H 7 HOH A 26 726 69 HOH HOH . H 7 HOH A 27 727 63 HOH HOH . H 7 HOH A 28 728 17 HOH HOH . H 7 HOH A 29 729 171 HOH HOH . H 7 HOH A 30 730 151 HOH HOH . H 7 HOH A 31 731 14 HOH HOH . H 7 HOH A 32 732 25 HOH HOH . H 7 HOH A 33 733 10 HOH HOH . H 7 HOH A 34 734 47 HOH HOH . H 7 HOH A 35 735 93 HOH HOH . H 7 HOH A 36 736 39 HOH HOH . H 7 HOH A 37 737 5 HOH HOH . H 7 HOH A 38 738 89 HOH HOH . H 7 HOH A 39 739 78 HOH HOH . H 7 HOH A 40 740 179 HOH HOH . H 7 HOH A 41 741 33 HOH HOH . H 7 HOH A 42 742 6 HOH HOH . H 7 HOH A 43 743 142 HOH HOH . H 7 HOH A 44 744 20 HOH HOH . H 7 HOH A 45 745 108 HOH HOH . H 7 HOH A 46 746 36 HOH HOH . H 7 HOH A 47 747 40 HOH HOH . H 7 HOH A 48 748 30 HOH HOH . H 7 HOH A 49 749 32 HOH HOH . H 7 HOH A 50 750 8 HOH HOH . H 7 HOH A 51 751 49 HOH HOH . H 7 HOH A 52 752 42 HOH HOH . H 7 HOH A 53 753 105 HOH HOH . H 7 HOH A 54 754 116 HOH HOH . H 7 HOH A 55 755 57 HOH HOH . H 7 HOH A 56 756 2 HOH HOH . H 7 HOH A 57 757 1 HOH HOH . H 7 HOH A 58 758 16 HOH HOH . H 7 HOH A 59 759 86 HOH HOH . H 7 HOH A 60 760 26 HOH HOH . H 7 HOH A 61 761 27 HOH HOH . H 7 HOH A 62 762 3 HOH HOH . H 7 HOH A 63 763 82 HOH HOH . H 7 HOH A 64 764 76 HOH HOH . H 7 HOH A 65 765 75 HOH HOH . H 7 HOH A 66 766 101 HOH HOH . H 7 HOH A 67 767 103 HOH HOH . H 7 HOH A 68 768 77 HOH HOH . H 7 HOH A 69 769 95 HOH HOH . H 7 HOH A 70 770 112 HOH HOH . H 7 HOH A 71 771 160 HOH HOH . H 7 HOH A 72 772 34 HOH HOH . H 7 HOH A 73 773 13 HOH HOH . H 7 HOH A 74 774 188 HOH HOH . H 7 HOH A 75 775 87 HOH HOH . H 7 HOH A 76 776 139 HOH HOH . H 7 HOH A 77 777 51 HOH HOH . H 7 HOH A 78 778 56 HOH HOH . H 7 HOH A 79 779 43 HOH HOH . H 7 HOH A 80 780 187 HOH HOH . H 7 HOH A 81 781 177 HOH HOH . H 7 HOH A 82 782 46 HOH HOH . H 7 HOH A 83 783 55 HOH HOH . H 7 HOH A 84 784 91 HOH HOH . H 7 HOH A 85 785 38 HOH HOH . H 7 HOH A 86 786 110 HOH HOH . H 7 HOH A 87 787 80 HOH HOH . H 7 HOH A 88 788 166 HOH HOH . H 7 HOH A 89 789 44 HOH HOH . H 7 HOH A 90 790 64 HOH HOH . H 7 HOH A 91 791 152 HOH HOH . H 7 HOH A 92 792 109 HOH HOH . H 7 HOH A 93 793 132 HOH HOH . H 7 HOH A 94 794 92 HOH HOH . H 7 HOH A 95 795 67 HOH HOH . H 7 HOH A 96 796 190 HOH HOH . H 7 HOH A 97 797 22 HOH HOH . H 7 HOH A 98 798 99 HOH HOH . H 7 HOH A 99 799 88 HOH HOH . H 7 HOH A 100 800 131 HOH HOH . H 7 HOH A 101 801 24 HOH HOH . H 7 HOH A 102 802 45 HOH HOH . H 7 HOH A 103 803 96 HOH HOH . H 7 HOH A 104 804 150 HOH HOH . H 7 HOH A 105 805 136 HOH HOH . H 7 HOH A 106 806 168 HOH HOH . H 7 HOH A 107 807 58 HOH HOH . H 7 HOH A 108 808 65 HOH HOH . H 7 HOH A 109 809 79 HOH HOH . H 7 HOH A 110 810 70 HOH HOH . H 7 HOH A 111 811 123 HOH HOH . H 7 HOH A 112 812 107 HOH HOH . H 7 HOH A 113 813 176 HOH HOH . H 7 HOH A 114 814 135 HOH HOH . H 7 HOH A 115 815 106 HOH HOH . H 7 HOH A 116 816 165 HOH HOH . H 7 HOH A 117 817 113 HOH HOH . H 7 HOH A 118 818 125 HOH HOH . H 7 HOH A 119 819 52 HOH HOH . H 7 HOH A 120 820 50 HOH HOH . H 7 HOH A 121 821 155 HOH HOH . H 7 HOH A 122 822 163 HOH HOH . H 7 HOH A 123 823 145 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 CL CL1 D59 . . . D 4 6.242 32.8 -11.04 1 34.03 ? CL1 D59 603 A 1 HETATM 2 C C1 D59 . . . D 4 6.363 31.066 -11.147 1 26.75 ? C1 D59 603 A 1 HETATM 3 C C2 D59 . . . D 4 5.264 30.342 -11.579 1 25.42 ? C2 D59 603 A 1 HETATM 4 C C6 D59 . . . D 4 7.539 30.421 -10.801 1 25.81 ? C6 D59 603 A 1 HETATM 5 C C5 D59 . . . D 4 7.611 29.042 -10.889 1 24.1 ? C5 D59 603 A 1 HETATM 6 CL CL2 D59 . . . D 4 9.077 28.206 -10.458 1 28.53 ? CL2 D59 603 A 1 HETATM 7 C C4 D59 . . . D 4 6.513 28.318 -11.326 1 24.46 ? C4 D59 603 A 1 HETATM 8 C C3 D59 . . . D 4 5.344 28.963 -11.698 1 25.23 ? C3 D59 603 A 1 HETATM 9 N N1 D59 . . . D 4 4.248 28.15 -12.085 1 28.12 ? N1 D59 603 A 1 HETATM 10 C C7 D59 . . . D 4 3.018 28.592 -12.638 1 33.58 ? C7 D59 603 A 1 HETATM 11 O O1 D59 . . . D 4 2.784 29.759 -12.872 1 32.17 ? O1 D59 603 A 1 HETATM 12 C C8 D59 . . . D 4 1.958 27.544 -12.891 1 41.55 ? C8 D59 603 A 1 HETATM 13 C C9 D59 . . . D 4 1.25 27.4 -14.082 1 45.35 ? C9 D59 603 A 1 HETATM 14 C C14 D59 . . . D 4 1.527 28.311 -15.265 1 48.66 ? C14 D59 603 A 1 HETATM 15 C C13 D59 . . . D 4 1.687 26.711 -11.815 1 43.28 ? C13 D59 603 A 1 HETATM 16 C C12 D59 . . . D 4 0.732 25.72 -11.907 1 41.19 ? C12 D59 603 A 1 HETATM 17 C C11 D59 . . . D 4 0.031 25.568 -13.084 1 39.64 ? C11 D59 603 A 1 HETATM 18 C C10 D59 . . . D 4 0.281 26.396 -14.165 1 44.15 ? C10 D59 603 A 1 HETATM 19 N N2 D59 . . . D 4 -0.503 26.152 -15.324 1 50.24 ? N2 D59 603 A 1 HETATM 20 O O2 D59 . . . D 4 -0.936 24.877 -15.564 1 49.13 ? O2 D59 603 A 1 HETATM 21 O O3 D59 . . . D 4 -0.867 27.157 -16.177 1 56.71 ? O3 D59 603 A 1 HETATM 22 H H1 D59 . . . D 4 4.44 30.805 -11.821 1 30.51 ? H1 D59 603 A 1 HETATM 23 H H2 D59 . . . D 4 8.31 30.934 -10.497 1 30.98 ? H2 D59 603 A 1 HETATM 24 H H3 D59 . . . D 4 6.568 27.345 -11.386 1 29.36 ? H3 D59 603 A 1 HETATM 25 H H4 D59 . . . D 4 4.32 27.258 -11.911 1 33.75 ? H4 D59 603 A 1 HETATM 26 H H5 D59 . . . D 4 2.355 28.812 -15.109 1 58.4 ? H5 D59 603 A 1 HETATM 27 H H6 D59 . . . D 4 1.627 27.768 -16.073 1 58.4 ? H6 D59 603 A 1 HETATM 28 H H7 D59 . . . D 4 0.777 28.931 -15.386 1 58.4 ? H7 D59 603 A 1 HETATM 29 H H8 D59 . . . D 4 2.187 26.822 -10.982 1 51.94 ? H8 D59 603 A 1 HETATM 30 H H9 D59 . . . D 4 0.553 25.135 -11.147 1 49.43 ? H9 D59 603 A 1 HETATM 31 H H10 D59 . . . D 4 -0.647 24.87 -13.156 1 47.57 ? H10 D59 603 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #