data_6WDY # _model_server_result.job_id esYg087XBOaY1nMilDVF5A _model_server_result.datetime_utc '2024-11-28 11:34:27' _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 6wdy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 6WDY # _exptl.entry_id 6WDY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.295 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-hydroxy-4-[(1H-indol-1-yl)methyl]benzamide _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 6WDY _cell.length_a 80.67 _cell.length_b 80.67 _cell.length_c 243.98 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WDY _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # 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 O ASP 172 A ASP 172 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.82 ? metalc ? metalc2 A OD2 ASP 172 A ASP 172 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc3 A OD1 ASP 174 A ASP 174 1_555 D ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc4 A OD2 ASP 174 A ASP 174 1_555 D ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc5 A O ASP 174 A ASP 174 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? metalc ? metalc6 A ND1 HIS 176 A HIS 176 1_555 D ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc7 A O HIS 176 A HIS 176 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc8 A O PHE 185 A PHE 185 1_555 I K K . A K 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc9 A O ASP 188 A ASP 188 1_555 I K K . A K 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.908 ? metalc ? metalc10 A O VAL 191 A VAL 191 1_555 I K K . A K 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc11 A OG SER 195 A SER 195 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? metalc ? metalc12 A O TRP 196 A TRP 196 1_555 H K K . A K 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.551 ? metalc ? metalc13 A O PHE 224 A PHE 224 1_555 I K K . A K 708 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc14 A OD2 ASP 267 A ASP 267 1_555 D ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc15 B O01 TWP . A TWP 701 1_555 D ZN ZN . A ZN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc16 I K K . A K 708 1_555 J O HOH . A HOH 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.979 ? metalc ? metalc17 I K K . A K 708 1_555 J O HOH . A HOH 875 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? # _chem_comp.formula 'C16 H14 N2 O2' _chem_comp.formula_weight 266.295 _chem_comp.id TWP _chem_comp.mon_nstd_flag . _chem_comp.name N-hydroxy-4-[(1H-indol-1-yl)methyl]benzamide _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 O20 C03 TWP doub 347 n n C19 C18 TWP doub 348 n y C19 C04 TWP sing 349 n y C18 C07 TWP sing 350 n y C03 C04 TWP sing 351 n n C03 N02 TWP sing 352 n n C04 C05 TWP doub 353 n y O01 N02 TWP sing 354 n n C07 C08 TWP sing 355 n n C07 C06 TWP doub 356 n y C08 N09 TWP sing 357 n n C05 C06 TWP sing 358 n y N09 C10 TWP sing 359 n y N09 C13 TWP sing 360 n y C10 C11 TWP doub 361 n y C13 C14 TWP doub 362 n y C13 C12 TWP sing 363 n y C11 C12 TWP sing 364 n y C14 C15 TWP sing 365 n y C12 C17 TWP doub 366 n y C15 C16 TWP doub 367 n y C17 C16 TWP sing 368 n y C10 H1 TWP sing 369 n n C15 H2 TWP sing 370 n n C17 H3 TWP sing 371 n n C05 H4 TWP sing 372 n n C06 H5 TWP sing 373 n n C08 H6 TWP sing 374 n n C08 H7 TWP sing 375 n n C11 H8 TWP sing 376 n n C14 H9 TWP sing 377 n n C16 H10 TWP sing 378 n n C18 H11 TWP sing 379 n n C19 H12 TWP sing 380 n n N02 H13 TWP sing 381 n n O01 H14 TWP sing 382 n n # _atom_sites.entry_id 6WDY _atom_sites.fract_transf_matrix[1][1] 0.012396 _atom_sites.fract_transf_matrix[1][2] 0.007157 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014314 _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] 0.004099 _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 TWP A 1 701 701 TWP LIG . C 3 EDO A 1 702 801 EDO EDO . D 4 ZN A 1 703 1 ZN ZN . E 5 PO4 A 1 704 1 PO4 PO4 . F 5 PO4 A 1 705 2 PO4 PO4 . G 5 PO4 A 1 706 3 PO4 PO4 . H 6 K A 1 707 1 K K . I 6 K A 1 708 2 K K . J 7 HOH A 1 801 98 HOH HOH . J 7 HOH A 2 802 80 HOH HOH . J 7 HOH A 3 803 72 HOH HOH . J 7 HOH A 4 804 61 HOH HOH . J 7 HOH A 5 805 22 HOH HOH . J 7 HOH A 6 806 18 HOH HOH . J 7 HOH A 7 807 7 HOH HOH . J 7 HOH A 8 808 28 HOH HOH . J 7 HOH A 9 809 2 HOH HOH . J 7 HOH A 10 810 62 HOH HOH . J 7 HOH A 11 811 63 HOH HOH . J 7 HOH A 12 812 8 HOH HOH . J 7 HOH A 13 813 17 HOH HOH . J 7 HOH A 14 814 74 HOH HOH . J 7 HOH A 15 815 50 HOH HOH . J 7 HOH A 16 816 67 HOH HOH . J 7 HOH A 17 817 56 HOH HOH . J 7 HOH A 18 818 53 HOH HOH . J 7 HOH A 19 819 75 HOH HOH . J 7 HOH A 20 820 9 HOH HOH . J 7 HOH A 21 821 20 HOH HOH . J 7 HOH A 22 822 73 HOH HOH . J 7 HOH A 23 823 10 HOH HOH . J 7 HOH A 24 824 45 HOH HOH . J 7 HOH A 25 825 32 HOH HOH . J 7 HOH A 26 826 33 HOH HOH . J 7 HOH A 27 827 44 HOH HOH . J 7 HOH A 28 828 91 HOH HOH . J 7 HOH A 29 829 41 HOH HOH . J 7 HOH A 30 830 37 HOH HOH . J 7 HOH A 31 831 1 HOH HOH . J 7 HOH A 32 832 27 HOH HOH . J 7 HOH A 33 833 47 HOH HOH . J 7 HOH A 34 834 6 HOH HOH . J 7 HOH A 35 835 40 HOH HOH . J 7 HOH A 36 836 93 HOH HOH . J 7 HOH A 37 837 49 HOH HOH . J 7 HOH A 38 838 66 HOH HOH . J 7 HOH A 39 839 36 HOH HOH . J 7 HOH A 40 840 48 HOH HOH . J 7 HOH A 41 841 29 HOH HOH . J 7 HOH A 42 842 21 HOH HOH . J 7 HOH A 43 843 71 HOH HOH . J 7 HOH A 44 844 43 HOH HOH . J 7 HOH A 45 845 11 HOH HOH . J 7 HOH A 46 846 15 HOH HOH . J 7 HOH A 47 847 4 HOH HOH . J 7 HOH A 48 848 23 HOH HOH . J 7 HOH A 49 849 12 HOH HOH . J 7 HOH A 50 850 70 HOH HOH . J 7 HOH A 51 851 89 HOH HOH . J 7 HOH A 52 852 5 HOH HOH . J 7 HOH A 53 853 31 HOH HOH . J 7 HOH A 54 854 13 HOH HOH . J 7 HOH A 55 855 26 HOH HOH . J 7 HOH A 56 856 82 HOH HOH . J 7 HOH A 57 857 90 HOH HOH . J 7 HOH A 58 858 38 HOH HOH . J 7 HOH A 59 859 34 HOH HOH . J 7 HOH A 60 860 30 HOH HOH . J 7 HOH A 61 861 51 HOH HOH . J 7 HOH A 62 862 99 HOH HOH . J 7 HOH A 63 863 19 HOH HOH . J 7 HOH A 64 864 24 HOH HOH . J 7 HOH A 65 865 60 HOH HOH . J 7 HOH A 66 866 95 HOH HOH . J 7 HOH A 67 867 88 HOH HOH . J 7 HOH A 68 868 16 HOH HOH . J 7 HOH A 69 869 65 HOH HOH . J 7 HOH A 70 870 84 HOH HOH . J 7 HOH A 71 871 97 HOH HOH . J 7 HOH A 72 872 92 HOH HOH . J 7 HOH A 73 873 79 HOH HOH . J 7 HOH A 74 874 57 HOH HOH . J 7 HOH A 75 875 3 HOH HOH . J 7 HOH A 76 876 83 HOH HOH . J 7 HOH A 77 877 85 HOH HOH . J 7 HOH A 78 878 64 HOH HOH . J 7 HOH A 79 879 52 HOH HOH . J 7 HOH A 80 880 25 HOH HOH . J 7 HOH A 81 881 87 HOH HOH . J 7 HOH A 82 882 59 HOH HOH . J 7 HOH A 83 883 77 HOH HOH . J 7 HOH A 84 884 58 HOH HOH . J 7 HOH A 85 885 94 HOH HOH . J 7 HOH A 86 886 76 HOH HOH . J 7 HOH A 87 887 96 HOH HOH . J 7 HOH A 88 888 81 HOH HOH . J 7 HOH A 89 889 55 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 C10 TWP . . . B 2 68.066 112.482 279.569 1 65.16 ? C10 TWP 701 A 1 HETATM 2 C C13 TWP . . . B 2 69.513 110.887 280.381 1 65.9 ? C13 TWP 701 A 1 HETATM 3 C C15 TWP . . . B 2 71.292 109.832 281.623 1 67.22 ? C15 TWP 701 A 1 HETATM 4 C C17 TWP . . . B 2 70.934 112.182 281.903 1 69.37 ? C17 TWP 701 A 1 HETATM 5 C C03 TWP . . . B 2 61.596 110.353 277.413 1 51.73 ? C03 TWP 701 A 1 HETATM 6 C C04 TWP . . . B 2 63.168 110.34 277.812 1 48.76 ? C04 TWP 701 A 1 HETATM 7 C C05 TWP . . . B 2 63.692 109.984 279.055 1 45.18 ? C05 TWP 701 A 1 HETATM 8 C C06 TWP . . . B 2 65.078 109.923 279.334 1 51.01 ? C06 TWP 701 A 1 HETATM 9 C C07 TWP . . . B 2 66.075 110.224 278.366 1 57.85 ? C07 TWP 701 A 1 HETATM 10 C C08 TWP . . . B 2 67.689 110.132 278.652 1 55.53 ? C08 TWP 701 A 1 HETATM 11 C C11 TWP . . . B 2 68.899 113.108 280.427 1 67.15 ? C11 TWP 701 A 1 HETATM 12 C C12 TWP . . . B 2 69.853 112.186 281.002 1 69.41 ? C12 TWP 701 A 1 HETATM 13 C C14 TWP . . . B 2 70.253 109.763 280.729 1 56.15 ? C14 TWP 701 A 1 HETATM 14 C C16 TWP . . . B 2 71.648 111.074 282.233 1 64.18 ? C16 TWP 701 A 1 HETATM 15 C C18 TWP . . . B 2 65.548 110.562 277.107 1 50.02 ? C18 TWP 701 A 1 HETATM 16 C C19 TWP . . . B 2 64.168 110.618 276.828 1 48.27 ? C19 TWP 701 A 1 HETATM 17 N N02 TWP . . . B 2 60.678 109.444 278.16 1 53.04 ? N02 TWP 701 A 1 HETATM 18 N N09 TWP . . . B 2 68.364 111.099 279.482 1 59.16 ? N09 TWP 701 A 1 HETATM 19 O O01 TWP . . . B 2 59.346 109.25 277.976 1 41.85 ? O01 TWP 701 A 1 HETATM 20 O O20 TWP . . . B 2 61.176 110.956 276.489 1 46.9 ? O20 TWP 701 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 346 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 20 #