data_5I75 # _model_server_result.job_id d2DuhZNVaiMNxvX9TuCXJA _model_server_result.datetime_utc '2024-11-24 18:23:18' _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 5i75 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":701}' # _entry.id 5I75 # _exptl.entry_id 5I75 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 324.392 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1S)-1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile _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 5I75 _cell.length_a 129.6 _cell.length_b 163.41 _cell.length_c 140.47 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5I75 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,G,H,I,J 1 1 B,C 1 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_855 -x+3,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 388.8 0 70.235 # _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 # 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 disulf ? disulf1 A SG CYS 127 A CYS 200 1_555 A SG CYS 136 A CYS 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? disulf ? disulf2 B SG CYS 22 B CYS 41 1_555 B SG CYS 96 B CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 B SG CYS 134 B CYS 153 1_555 C SG CYS 214 C CYS 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 B SG CYS 146 B CYS 165 1_555 B SG CYS 201 B CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 C SG CYS 23 C CYS 43 1_555 C SG CYS 88 C CYS 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 C SG CYS 134 C CYS 154 1_555 C SG CYS 194 C CYS 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A ND2 ASN 135 A ASN 208 1_555 E C1 NAG . A NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale2 A ND2 ASN 144 A ASN 217 1_555 I C1 NAG . A NAG 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? metalc ? metalc1 A O GLY 21 A GLY 94 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc2 A O VAL 24 A VAL 97 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 A O LEU 361 A LEU 434 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc4 A OD1 ASP 364 A ASP 437 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc5 A OG SER 365 A SER 438 1_555 J NA NA . A NA 707 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? # _chem_comp.formula 'C20 H21 F N2 O' _chem_comp.formula_weight 324.392 _chem_comp.id 68P _chem_comp.mon_nstd_flag . _chem_comp.name (1S)-1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile _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 F01 C21 68P sing 1 n n C20 C21 68P doub 2 n y C20 C16 68P sing 3 n y C21 C19 68P sing 4 n y C16 C10 68P doub 5 n y C17 C13 68P doub 6 n y C17 C18 68P sing 7 n y N04 C24 68P trip 8 n n C19 C15 68P doub 9 n y C13 C07 68P sing 10 n y C24 C18 68P sing 11 n n C18 C14 68P doub 12 n y C10 C15 68P sing 13 n y C10 C05 68P sing 14 n n C07 C05 68P sing 15 n n C07 C08 68P doub 16 n y C14 C08 68P sing 17 n y C05 C06 68P sing 18 n n C05 O02 68P sing 19 n n C08 C11 68P sing 20 n n C23 N03 68P sing 21 n n C06 C09 68P sing 22 n n O02 C11 68P sing 23 n n C09 C12 68P sing 24 n n C22 N03 68P sing 25 n n N03 C12 68P sing 26 n n C13 H1 68P sing 27 n n C15 H2 68P sing 28 n n C17 H3 68P sing 29 n n C20 H4 68P sing 30 n n C22 H5 68P sing 31 n n C22 H6 68P sing 32 n n C22 H7 68P sing 33 n n C06 H9 68P sing 34 n n C06 H10 68P sing 35 n n C09 H11 68P sing 36 n n C09 H12 68P sing 37 n n C11 H13 68P sing 38 n n C11 H14 68P sing 39 n n C12 H15 68P sing 40 n n C12 H16 68P sing 41 n n C14 H17 68P sing 42 n n C16 H18 68P sing 43 n n C19 H19 68P sing 44 n n C23 H20 68P sing 45 n n C23 H21 68P sing 46 n n C23 H22 68P sing 47 n n # _atom_sites.entry_id 5I75 _atom_sites.fract_transf_matrix[1][1] 0.007716 _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] 0.00612 _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] 0.007119 _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 D 4 68P A 1 701 700 68P 68P . E 5 NAG A 1 702 701 NAG NAG . F 6 CLR A 1 703 702 CLR CLR . G 7 C14 A 1 704 704 C14 C14 . H 8 69D A 1 705 705 69D 69D . I 5 NAG A 1 706 706 NAG NAG . J 9 NA A 1 707 803 NA NA . # 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 68P . . . D 4 160.52 184.571 2.886 1 115.44 ? C10 68P 701 A 1 HETATM 2 C C13 68P . . . D 4 163.297 182.662 3.015 1 132.05 ? C13 68P 701 A 1 HETATM 3 C C15 68P . . . D 4 159.329 183.675 2.526 1 141.01 ? C15 68P 701 A 1 HETATM 4 C C17 68P . . . D 4 163.939 181.315 2.717 1 135.45 ? C17 68P 701 A 1 HETATM 5 C C20 68P . . . D 4 159.307 185.226 5.148 1 124.72 ? C20 68P 701 A 1 HETATM 6 C C21 68P . . . D 4 158.12 184.329 4.782 1 151.8 ? C21 68P 701 A 1 HETATM 7 C C22 68P . . . D 4 165.815 187.523 -0.412 1 134.43 ? C22 68P 701 A 1 HETATM 8 C C24 68P . . . D 4 164.4 179.326 1.092 1 137.94 ? C24 68P 701 A 1 HETATM 9 F F01 68P . . . D 4 157.071 184.228 5.616 1 171.33 ? F01 68P 701 A 1 HETATM 10 O O02 68P . . . D 4 161.227 184.923 0.63 1 128.37 ? O02 68P 701 A 1 HETATM 11 N N03 68P . . . D 4 164.385 187.179 -0.607 1 140.27 ? N03 68P 701 A 1 HETATM 12 N N04 68P . . . D 4 164.899 178.297 0.889 1 135.12 ? N04 68P 701 A 1 HETATM 13 C C05 68P . . . D 4 161.69 184.684 1.955 1 112.35 ? C05 68P 701 A 1 HETATM 14 C C06 68P . . . D 4 162.626 185.818 2.422 1 109.55 ? C06 68P 701 A 1 HETATM 15 C C07 68P . . . D 4 162.444 183.375 1.942 1 113.73 ? C07 68P 701 A 1 HETATM 16 C C08 68P . . . D 4 162.248 182.753 0.62 1 135.14 ? C08 68P 701 A 1 HETATM 17 C C09 68P . . . D 4 163.803 185.929 1.432 1 108.42 ? C09 68P 701 A 1 HETATM 18 C C11 68P . . . D 4 161.407 183.67 -0.164 1 135.8 ? C11 68P 701 A 1 HETATM 19 C C12 68P . . . D 4 163.676 187.238 0.654 1 120.39 ? C12 68P 701 A 1 HETATM 20 C C14 68P . . . D 4 162.904 181.382 0.31 1 139.08 ? C14 68P 701 A 1 HETATM 21 C C16 68P . . . D 4 160.509 185.343 4.194 1 115.91 ? C16 68P 701 A 1 HETATM 22 C C18 68P . . . D 4 163.745 180.681 1.374 1 138.85 ? C18 68P 701 A 1 HETATM 23 C C19 68P . . . D 4 158.126 183.555 3.476 1 148.66 ? C19 68P 701 A 1 HETATM 24 C C23 68P . . . D 4 164.266 185.878 -1.22 1 158.73 ? C23 68P 701 A 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 225 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #