data_3NF9 # _model_server_result.job_id 3fBHRwiCzoJsuyh-zyAyEg _model_server_result.datetime_utc '2024-11-13 08:16:28' _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 3nf9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":213}' # _entry.id 3NF9 # _exptl.entry_id 3NF9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 345.734 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-[(6-chloro-2-oxo-2,3-dihydro-1H-indol-1-yl)methyl]-1,3-benzodioxole-4-carboxylic acid' _entity.pdbx_number_of_molecules 2 _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 3NF9 _cell.length_a 71.379 _cell.length_b 71.379 _cell.length_c 66.598 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NF9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31' # _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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 H N N ? 3 S N N # _chem_comp.formula 'C17 H12 Cl N O5' _chem_comp.formula_weight 345.734 _chem_comp.id CD9 _chem_comp.mon_nstd_flag . _chem_comp.name '5-[(6-chloro-2-oxo-2,3-dihydro-1H-indol-1-yl)methyl]-1,3-benzodioxole-4-carboxylic acid' _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 O23 C22 CD9 sing 77 n n O23 C15 CD9 sing 78 n n C22 O21 CD9 sing 79 n n C15 C14 CD9 doub 80 n y C15 C16 CD9 sing 81 n y O21 C16 CD9 sing 82 n n C14 C13 CD9 sing 83 n y C16 C17 CD9 doub 84 n y C13 C12 CD9 doub 85 n y C17 C12 CD9 sing 86 n y C17 C18 CD9 sing 87 n n O19 C18 CD9 sing 88 n n C12 C11 CD9 sing 89 n n C18 O20 CD9 doub 90 n n C11 N10 CD9 sing 91 n n O9 C8 CD9 doub 92 n n N10 C8 CD9 sing 93 n n N10 C4 CD9 sing 94 n n C8 C7 CD9 sing 95 n n C3 C4 CD9 sing 96 n y C3 C2 CD9 doub 97 n y C4 C5 CD9 doub 98 n y CL24 C2 CD9 sing 99 n n C2 C1 CD9 sing 100 n y C7 C5 CD9 sing 101 n n C5 C6 CD9 sing 102 n y C1 C6 CD9 doub 103 n y C1 H1 CD9 sing 104 n n C3 H3 CD9 sing 105 n n C6 H6 CD9 sing 106 n n C7 H17 CD9 sing 107 n n C7 H27 CD9 sing 108 n n C11 H111 CD9 sing 109 n n C11 H211 CD9 sing 110 n n C13 H13 CD9 sing 111 n n C14 H14 CD9 sing 112 n n C22 H122 CD9 sing 113 n n C22 H222 CD9 sing 114 n n O19 HO19 CD9 sing 115 n n # _atom_sites.entry_id 3NF9 _atom_sites.fract_transf_matrix[1][1] 0.01401 _atom_sites.fract_transf_matrix[1][2] 0.008089 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016177 _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] 0.015016 _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 2 SO4 A 1 2 2 SO4 SO4 . D 2 SO4 A 1 4 4 SO4 SO4 . E 2 SO4 A 1 5 5 SO4 SO4 . F 2 SO4 A 1 8 8 SO4 SO4 . G 2 SO4 A 1 10 10 SO4 SO4 . H 3 CD9 A 1 220 220 CD9 UNL . I 4 EDO A 1 1 1 EDO EDO . J 4 EDO A 1 213 2 EDO EDO . K 5 ACY A 1 214 2 ACY ACY . L 5 ACY A 1 215 4 ACY ACY . M 2 SO4 B 1 1 1 SO4 SO4 . N 2 SO4 B 1 3 3 SO4 SO4 . O 2 SO4 B 1 6 6 SO4 SO4 . P 2 SO4 B 1 7 7 SO4 SO4 . Q 2 SO4 B 1 9 9 SO4 SO4 . R 2 SO4 B 1 11 11 SO4 SO4 . S 3 CD9 B 1 213 210 CD9 UNL . T 5 ACY B 1 214 1 ACY ACY . U 5 ACY B 1 215 3 ACY ACY . V 5 ACY B 1 5 5 ACY ACY . W 5 ACY B 1 216 6 ACY ACY . X 6 HOH A 1 6 6 HOH HOH . X 6 HOH A 2 7 7 HOH HOH . X 6 HOH A 3 11 11 HOH HOH . X 6 HOH A 4 12 12 HOH HOH . X 6 HOH A 5 16 16 HOH HOH . X 6 HOH A 6 18 18 HOH HOH . X 6 HOH A 7 19 19 HOH HOH . X 6 HOH A 8 20 20 HOH HOH . X 6 HOH A 9 21 21 HOH HOH . X 6 HOH A 10 26 26 HOH HOH . X 6 HOH A 11 29 29 HOH HOH . X 6 HOH A 12 216 1 HOH HOH . X 6 HOH A 13 217 2 HOH HOH . X 6 HOH A 14 218 10 HOH HOH . X 6 HOH A 15 219 32 HOH HOH . X 6 HOH A 16 221 33 HOH HOH . X 6 HOH A 17 222 35 HOH HOH . X 6 HOH A 18 223 36 HOH HOH . X 6 HOH A 19 224 39 HOH HOH . X 6 HOH A 20 225 42 HOH HOH . X 6 HOH A 21 226 46 HOH HOH . X 6 HOH A 22 227 47 HOH HOH . X 6 HOH A 23 228 49 HOH HOH . X 6 HOH A 24 229 53 HOH HOH . X 6 HOH A 25 230 55 HOH HOH . X 6 HOH A 26 231 56 HOH HOH . X 6 HOH A 27 232 57 HOH HOH . X 6 HOH A 28 233 58 HOH HOH . X 6 HOH A 29 234 59 HOH HOH . X 6 HOH A 30 235 61 HOH HOH . X 6 HOH A 31 236 63 HOH HOH . X 6 HOH A 32 237 65 HOH HOH . X 6 HOH A 33 238 66 HOH HOH . X 6 HOH A 34 239 67 HOH HOH . X 6 HOH A 35 240 70 HOH HOH . X 6 HOH A 36 241 72 HOH HOH . X 6 HOH A 37 242 74 HOH HOH . X 6 HOH A 38 243 75 HOH HOH . X 6 HOH A 39 244 76 HOH HOH . X 6 HOH A 40 245 77 HOH HOH . X 6 HOH A 41 246 78 HOH HOH . X 6 HOH A 42 247 79 HOH HOH . X 6 HOH A 43 248 80 HOH HOH . X 6 HOH A 44 249 85 HOH HOH . X 6 HOH A 45 250 86 HOH HOH . X 6 HOH A 46 251 89 HOH HOH . Y 6 HOH B 1 4 4 HOH HOH . Y 6 HOH B 2 8 8 HOH HOH . Y 6 HOH B 3 13 13 HOH HOH . Y 6 HOH B 4 14 14 HOH HOH . Y 6 HOH B 5 15 15 HOH HOH . Y 6 HOH B 6 17 17 HOH HOH . Y 6 HOH B 7 22 22 HOH HOH . Y 6 HOH B 8 23 23 HOH HOH . Y 6 HOH B 9 24 24 HOH HOH . Y 6 HOH B 10 25 25 HOH HOH . Y 6 HOH B 11 27 27 HOH HOH . Y 6 HOH B 12 28 28 HOH HOH . Y 6 HOH B 13 217 3 HOH HOH . Y 6 HOH B 14 218 5 HOH HOH . Y 6 HOH B 15 219 9 HOH HOH . Y 6 HOH B 16 220 30 HOH HOH . Y 6 HOH B 17 221 31 HOH HOH . Y 6 HOH B 18 222 34 HOH HOH . Y 6 HOH B 19 223 37 HOH HOH . Y 6 HOH B 20 224 38 HOH HOH . Y 6 HOH B 21 225 40 HOH HOH . Y 6 HOH B 22 226 41 HOH HOH . Y 6 HOH B 23 227 43 HOH HOH . Y 6 HOH B 24 228 44 HOH HOH . Y 6 HOH B 25 229 45 HOH HOH . Y 6 HOH B 26 230 48 HOH HOH . Y 6 HOH B 27 231 50 HOH HOH . Y 6 HOH B 28 232 51 HOH HOH . Y 6 HOH B 29 233 52 HOH HOH . Y 6 HOH B 30 234 54 HOH HOH . Y 6 HOH B 31 235 60 HOH HOH . Y 6 HOH B 32 236 62 HOH HOH . Y 6 HOH B 33 237 64 HOH HOH . Y 6 HOH B 34 238 68 HOH HOH . Y 6 HOH B 35 239 69 HOH HOH . Y 6 HOH B 36 240 71 HOH HOH . Y 6 HOH B 37 241 73 HOH HOH . Y 6 HOH B 38 242 81 HOH HOH . Y 6 HOH B 39 243 82 HOH HOH . Y 6 HOH B 40 244 83 HOH HOH . Y 6 HOH B 41 245 84 HOH HOH . Y 6 HOH B 42 246 87 HOH HOH . Y 6 HOH B 43 247 88 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 C1 CD9 . . . S 3 22.307 -18.849 20.53 0.8 54.6 ? C1 CD9 213 B 1 HETATM 2 C C2 CD9 . . . S 3 22.244 -20.181 20.911 0.8 54.62 ? C2 CD9 213 B 1 HETATM 3 C C3 CD9 . . . S 3 21.034 -20.751 21.244 0.8 44.82 ? C3 CD9 213 B 1 HETATM 4 C C4 CD9 . . . S 3 19.912 -19.97 21.17 0.8 47.63 ? C4 CD9 213 B 1 HETATM 5 C C5 CD9 . . . S 3 19.948 -18.652 20.777 0.8 46.32 ? C5 CD9 213 B 1 HETATM 6 C C6 CD9 . . . S 3 21.159 -18.064 20.458 0.8 51.68 ? C6 CD9 213 B 1 HETATM 7 C C7 CD9 . . . S 3 18.571 -18.08 20.814 0.8 43.78 ? C7 CD9 213 B 1 HETATM 8 C C8 CD9 . . . S 3 17.761 -19.281 21.289 0.8 43.19 ? C8 CD9 213 B 1 HETATM 9 O O9 CD9 . . . S 3 16.558 -19.303 21.504 0.8 48.77 ? O9 CD9 213 B 1 HETATM 10 N N10 CD9 . . . S 3 18.608 -20.364 21.463 0.8 38.97 ? N10 CD9 213 B 1 HETATM 11 C C11 CD9 . . . S 3 18.222 -21.718 21.762 0.8 42.7 ? C11 CD9 213 B 1 HETATM 12 C C12 CD9 . . . S 3 18.133 -22.003 23.243 0.8 52.36 ? C12 CD9 213 B 1 HETATM 13 C C13 CD9 . . . S 3 18.837 -21.259 24.183 0.8 59.86 ? C13 CD9 213 B 1 HETATM 14 C C14 CD9 . . . S 3 18.784 -21.516 25.553 0.8 55.86 ? C14 CD9 213 B 1 HETATM 15 C C15 CD9 . . . S 3 17.984 -22.553 25.989 0.8 65.48 ? C15 CD9 213 B 1 HETATM 16 C C16 CD9 . . . S 3 17.28 -23.293 25.088 0.8 56.3 ? C16 CD9 213 B 1 HETATM 17 C C17 CD9 . . . S 3 17.345 -23.04 23.728 0.8 54.81 ? C17 CD9 213 B 1 HETATM 18 C C18 CD9 . . . S 3 16.58 -23.913 22.848 0.8 57.89 ? C18 CD9 213 B 1 HETATM 19 O O19 CD9 . . . S 3 15.53 -24.345 23.391 0.8 56.6 ? O19 CD9 213 B 1 HETATM 20 O O20 CD9 . . . S 3 17.107 -24.166 21.704 0.8 55.99 ? O20 CD9 213 B 1 HETATM 21 O O21 CD9 . . . S 3 16.528 -24.273 25.693 0.8 59.71 ? O21 CD9 213 B 1 HETATM 22 C C22 CD9 . . . S 3 16.785 -24.001 27.091 0.8 66.21 ? C22 CD9 213 B 1 HETATM 23 O O23 CD9 . . . S 3 17.773 -22.975 27.297 0.8 69.22 ? O23 CD9 213 B 1 HETATM 24 CL CL24 CD9 . . . S 3 23.615 -21.255 21.03 0.8 64.97 ? CL24 CD9 213 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 244 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #