data_4M48 # _model_server_result.job_id 0SLthfmEVjViJuRYY6AJuw _model_server_result.datetime_utc '2024-11-28 06:07:27' _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 4m48 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":704}' # _entry.id 4M48 # _exptl.entry_id 4M48 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 263.377 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description Nortriptyline _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 4M48 _cell.length_a 97.839 _cell.length_b 133.684 _cell.length_c 162.443 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4M48 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,K _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 6 _struct_asym.id G _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 129 A CYS 148 1_555 A SG CYS 138 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 B SG CYS 45 L CYS 23 1_555 B SG CYS 111 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 B SG CYS 157 L CYS 135 1_555 B SG CYS 217 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 C SG CYS 41 H CYS 22 1_555 C SG CYS 115 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf5 C SG CYS 165 H CYS 146 1_555 C SG CYS 220 H CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc1 A O GLY 23 A GLY 42 1_555 E NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc2 A O ALA 25 A ALA 44 1_555 D NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc3 A O VAL 26 A VAL 45 1_555 E NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.292 ? metalc ? metalc4 A OD1 ASN 30 A ASN 49 1_555 D NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc5 A O SER 258 A SER 320 1_555 D NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc6 A OG SER 258 A SER 320 1_555 D NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc7 A OD1 ASN 290 A ASN 352 1_555 D NA NA . A NA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.01 ? metalc ? metalc8 A O LEU 355 A LEU 417 1_555 E NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc9 A OD1 ASP 358 A ASP 420 1_555 E NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.558 ? metalc ? metalc10 A OG SER 359 A SER 421 1_555 E NA NA . A NA 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc11 D NA NA . A NA 701 1_555 I O HOH . A HOH 809 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.86 ? # _chem_comp.formula 'C19 H21 N' _chem_comp.formula_weight 263.377 _chem_comp.id 21B _chem_comp.mon_nstd_flag . _chem_comp.name Nortriptyline _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 3-(10,11-dihydro-5H-dibenzo[a,d][7]annulen-5-ylidene)-N-methylpropan-1-amine # 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 C16 N 21B sing 1 n n N C15 21B sing 2 n n C1 C 21B doub 3 n y C1 C2 21B sing 4 n y C12 C2 21B sing 5 n n C12 C11 21B sing 6 n n C C18 21B sing 7 n y C2 C3 21B doub 8 n y C15 C14 21B sing 9 n n C18 C17 21B doub 10 n y C13 C14 21B sing 11 n n C13 C4 21B doub 12 n n C3 C17 21B sing 13 n y C3 C4 21B sing 14 n n C11 C6 21B sing 15 n n C4 C5 21B sing 16 n n C6 C5 21B doub 17 n y C6 C7 21B sing 18 n y C5 C10 21B sing 19 n y C7 C8 21B doub 20 n y C10 C9 21B doub 21 n y C8 C9 21B sing 22 n y C16 H1 21B sing 23 n n C16 H2 21B sing 24 n n C16 H3 21B sing 25 n n N H4 21B sing 26 n n C15 H6 21B sing 27 n n C15 H7 21B sing 28 n n C14 H8 21B sing 29 n n C14 H9 21B sing 30 n n C13 H10 21B sing 31 n n C17 H11 21B sing 32 n n C18 H12 21B sing 33 n n C H13 21B sing 34 n n C10 H14 21B sing 35 n n C9 H15 21B sing 36 n n C8 H16 21B sing 37 n n C7 H17 21B sing 38 n n C11 H18 21B sing 39 n n C11 H19 21B sing 40 n n C12 H20 21B sing 41 n n C12 H21 21B sing 42 n n C1 H22 21B sing 43 n n # _atom_sites.entry_id 4M48 _atom_sites.fract_transf_matrix[1][1] 0.010221 _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] 0.00748 _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] 0.006156 _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 NA A 1 701 1 NA NA . E 4 NA A 1 702 2 NA NA . F 5 CL A 1 703 3 CL CL . G 6 21B A 1 704 1 21B DUM . H 7 CLR A 1 705 1 CLR CLR . I 8 HOH A 1 801 3 HOH HOH . I 8 HOH A 2 802 4 HOH HOH . I 8 HOH A 3 803 5 HOH HOH . I 8 HOH A 4 804 18 HOH HOH . I 8 HOH A 5 805 19 HOH HOH . I 8 HOH A 6 806 20 HOH HOH . I 8 HOH A 7 807 21 HOH HOH . I 8 HOH A 8 808 22 HOH HOH . I 8 HOH A 9 809 23 HOH HOH . I 8 HOH A 10 810 24 HOH HOH . I 8 HOH A 11 811 26 HOH HOH . I 8 HOH A 12 812 27 HOH HOH . I 8 HOH A 13 813 29 HOH HOH . I 8 HOH A 14 814 30 HOH HOH . I 8 HOH A 15 815 31 HOH HOH . I 8 HOH A 16 816 32 HOH HOH . J 8 HOH L 1 301 1 HOH HOH . J 8 HOH L 2 302 2 HOH HOH . J 8 HOH L 3 303 6 HOH HOH . J 8 HOH L 4 304 11 HOH HOH . J 8 HOH L 5 305 13 HOH HOH . J 8 HOH L 6 306 16 HOH HOH . J 8 HOH L 7 307 17 HOH HOH . J 8 HOH L 8 308 25 HOH HOH . J 8 HOH L 9 309 28 HOH HOH . K 8 HOH H 1 301 7 HOH HOH . K 8 HOH H 2 302 8 HOH HOH . K 8 HOH H 3 303 9 HOH HOH . K 8 HOH H 4 304 10 HOH HOH . K 8 HOH H 5 305 12 HOH HOH . K 8 HOH H 6 306 14 HOH HOH . K 8 HOH H 7 307 15 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 C16 21B . . . G 6 -43.098 -1.59 52.125 1 72.07 ? C16 21B 704 A 1 HETATM 2 N N 21B . . . G 6 -43.098 -2.738 53.001 1 76.65 ? N 21B 704 A 1 HETATM 3 C C15 21B . . . G 6 -42.972 -2.555 54.431 1 79.1 ? C15 21B 704 A 1 HETATM 4 C C14 21B . . . G 6 -41.612 -3.009 54.961 1 83.28 ? C14 21B 704 A 1 HETATM 5 C C13 21B . . . G 6 -40.607 -1.909 54.723 1 71.58 ? C13 21B 704 A 1 HETATM 6 C C4 21B . . . G 6 -39.407 -1.754 55.316 1 73.95 ? C4 21B 704 A 1 HETATM 7 C C3 21B . . . G 6 -38.627 -0.564 54.875 1 79.33 ? C3 21B 704 A 1 HETATM 8 C C17 21B . . . G 6 -39.042 0.731 55.165 1 73.37 ? C17 21B 704 A 1 HETATM 9 C C18 21B . . . G 6 -38.271 1.795 54.712 1 79.5 ? C18 21B 704 A 1 HETATM 10 C C 21B . . . G 6 -37.111 1.554 53.975 1 87.03 ? C 21B 704 A 1 HETATM 11 C C5 21B . . . G 6 -38.794 -2.652 56.36 1 71.85 ? C5 21B 704 A 1 HETATM 12 C C10 21B . . . G 6 -39.541 -2.977 57.489 1 74.32 ? C10 21B 704 A 1 HETATM 13 C C9 21B . . . G 6 -39.02 -3.788 58.492 1 82.06 ? C9 21B 704 A 1 HETATM 14 C C8 21B . . . G 6 -37.724 -4.273 58.393 1 78.92 ? C8 21B 704 A 1 HETATM 15 C C7 21B . . . G 6 -36.966 -3.937 57.28 1 80.49 ? C7 21B 704 A 1 HETATM 16 C C6 21B . . . G 6 -37.482 -3.134 56.265 1 76.94 ? C6 21B 704 A 1 HETATM 17 C C11 21B . . . G 6 -36.519 -2.862 55.124 1 72.63 ? C11 21B 704 A 1 HETATM 18 C C12 21B . . . G 6 -37.127 -2.243 53.876 1 73.28 ? C12 21B 704 A 1 HETATM 19 C C2 21B . . . G 6 -37.486 -0.804 54.147 1 80.83 ? C2 21B 704 A 1 HETATM 20 C C1 21B . . . G 6 -36.71 0.252 53.686 1 82.87 ? C1 21B 704 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 20 #