data_4MMD # _model_server_result.job_id H3k9MkPcyhBm_GjpiF4SDg _model_server_result.datetime_utc '2024-10-13 19:15:39' _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 4mmd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":603}' # _entry.id 4MMD # _exptl.entry_id 4MMD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 297.415 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3S)-N-methyl-3-(naphthalen-1-yloxy)-3-(thiophen-2-yl)propan-1-amine _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 94.09 _cell.angle_gamma 90 _cell.entry_id 4MMD _cell.length_a 84.409 _cell.length_b 92.207 _cell.length_c 88.308 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4MMD _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 PISA dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,L 1 1 B,I,J,K,M 2 1 A,B,C,D,E,F,G,H,I,J,K,L,M 3 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 E N N ? 3 K N 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 GLY 20 A GLY 20 1_555 C NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc2 A O ALA 22 A ALA 22 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc3 A O VAL 23 A VAL 23 1_555 C NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc4 A OD1 ASN 27 A ASN 27 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc5 A O SER 254 A SER 254 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc6 A OG SER 254 A SER 254 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc7 A OD1 ASN 286 A ASN 286 1_555 D NA NA . A NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? metalc ? metalc8 A O ALA 351 A ALA 351 1_555 C NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? metalc ? metalc9 A OG1 THR 354 A THR 354 1_555 C NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc10 A OG SER 355 A SER 355 1_555 C NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc11 D NA NA . A NA 602 1_555 L O HOH . A HOH 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc12 B O GLY 20 B GLY 20 1_555 I NA NA . B NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc13 B O ALA 22 B ALA 22 1_555 J NA NA . B NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? metalc ? metalc14 B O VAL 23 B VAL 23 1_555 I NA NA . B NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc15 B OD1 ASN 27 B ASN 27 1_555 J NA NA . B NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? metalc ? metalc16 B O SER 254 B SER 254 1_555 J NA NA . B NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc17 B OG SER 254 B SER 254 1_555 J NA NA . B NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.648 ? metalc ? metalc18 B OD1 ASN 286 B ASN 286 1_555 J NA NA . B NA 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? metalc ? metalc19 B O ALA 351 B ALA 351 1_555 I NA NA . B NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc20 B OG1 THR 354 B THR 354 1_555 I NA NA . B NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc21 B OG SER 355 B SER 355 1_555 I NA NA . B NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc22 J NA NA . B NA 602 1_555 M O HOH . B HOH 726 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? # _chem_comp.formula 'C18 H19 N O S' _chem_comp.formula_weight 297.415 _chem_comp.id 29E _chem_comp.mon_nstd_flag . _chem_comp.name (3S)-N-methyl-3-(naphthalen-1-yloxy)-3-(thiophen-2-yl)propan-1-amine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Duloxetine # 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 C7 C6 29E doub 1 n y C7 C8 29E sing 2 n y C6 C5 29E sing 3 n y S C17 29E sing 4 n y S C14 29E sing 5 n y C9 C8 29E doub 6 n y C9 C10 29E sing 7 n y C17 C16 29E doub 8 n y C8 C13 29E sing 9 n y C5 C4 29E doub 10 n y C10 C11 29E doub 11 n y C13 C4 29E sing 12 n y C13 C12 29E doub 13 n y C4 O 29E sing 14 n n C16 C15 29E sing 15 n y C14 C3 29E sing 16 n n C14 C15 29E doub 17 n y C11 C12 29E sing 18 n y C3 O 29E sing 19 n n C3 C2 29E sing 20 n n C2 C1 29E sing 21 n n C1 N 29E sing 22 n n C N 29E sing 23 n n C H1 29E sing 24 n n C H2 29E sing 25 n n C H3 29E sing 26 n n N H4 29E sing 27 n n C1 H6 29E sing 28 n n C1 H7 29E sing 29 n n C2 H8 29E sing 30 n n C2 H9 29E sing 31 n n C3 H10 29E sing 32 n n C17 H11 29E sing 33 n n C16 H12 29E sing 34 n n C15 H13 29E sing 35 n n C12 H14 29E sing 36 n n C11 H15 29E sing 37 n n C10 H16 29E sing 38 n n C9 H17 29E sing 39 n n C7 H18 29E sing 40 n n C6 H19 29E sing 41 n n C5 H20 29E sing 42 n n # _atom_sites.entry_id 4MMD _atom_sites.fract_transf_matrix[1][1] 0.011847 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000848 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010845 _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] 0.011353 _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 NA A 1 601 751 NA NA . D 2 NA A 1 602 752 NA NA . E 3 29E A 1 603 2 29E DUM . F 4 BOG A 1 604 1 BOG BOG . G 4 BOG A 1 605 2 BOG BOG . H 4 BOG A 1 606 3 BOG BOG . I 2 NA B 1 601 751 NA NA . J 2 NA B 1 602 752 NA NA . K 3 29E B 1 603 1 29E DUM . L 5 HOH A 1 701 1 HOH HOH . L 5 HOH A 2 702 4 HOH HOH . L 5 HOH A 3 703 6 HOH HOH . L 5 HOH A 4 704 10 HOH HOH . L 5 HOH A 5 705 11 HOH HOH . L 5 HOH A 6 706 12 HOH HOH . L 5 HOH A 7 707 13 HOH HOH . L 5 HOH A 8 708 16 HOH HOH . L 5 HOH A 9 709 23 HOH HOH . L 5 HOH A 10 710 28 HOH HOH . L 5 HOH A 11 711 31 HOH HOH . L 5 HOH A 12 712 32 HOH HOH . L 5 HOH A 13 713 34 HOH HOH . L 5 HOH A 14 714 41 HOH HOH . L 5 HOH A 15 715 42 HOH HOH . L 5 HOH A 16 716 44 HOH HOH . L 5 HOH A 17 717 46 HOH HOH . L 5 HOH A 18 718 50 HOH HOH . L 5 HOH A 19 719 51 HOH HOH . L 5 HOH A 20 720 52 HOH HOH . L 5 HOH A 21 721 54 HOH HOH . L 5 HOH A 22 722 57 HOH HOH . L 5 HOH A 23 723 58 HOH HOH . L 5 HOH A 24 724 61 HOH HOH . L 5 HOH A 25 725 64 HOH HOH . L 5 HOH A 26 726 67 HOH HOH . L 5 HOH A 27 727 68 HOH HOH . L 5 HOH A 28 728 72 HOH HOH . L 5 HOH A 29 729 74 HOH HOH . L 5 HOH A 30 730 75 HOH HOH . L 5 HOH A 31 731 76 HOH HOH . L 5 HOH A 32 732 78 HOH HOH . L 5 HOH A 33 733 80 HOH HOH . L 5 HOH A 34 734 81 HOH HOH . L 5 HOH A 35 735 83 HOH HOH . L 5 HOH A 36 736 87 HOH HOH . L 5 HOH A 37 737 93 HOH HOH . L 5 HOH A 38 738 94 HOH HOH . L 5 HOH A 39 739 95 HOH HOH . L 5 HOH A 40 740 96 HOH HOH . L 5 HOH A 41 741 100 HOH HOH . L 5 HOH A 42 742 101 HOH HOH . L 5 HOH A 43 743 106 HOH HOH . L 5 HOH A 44 744 113 HOH HOH . L 5 HOH A 45 745 116 HOH HOH . L 5 HOH A 46 746 119 HOH HOH . L 5 HOH A 47 747 121 HOH HOH . L 5 HOH A 48 748 122 HOH HOH . L 5 HOH A 49 749 123 HOH HOH . L 5 HOH A 50 750 125 HOH HOH . L 5 HOH A 51 751 129 HOH HOH . L 5 HOH A 52 752 134 HOH HOH . L 5 HOH A 53 753 136 HOH HOH . L 5 HOH A 54 754 137 HOH HOH . L 5 HOH A 55 755 138 HOH HOH . L 5 HOH A 56 756 139 HOH HOH . L 5 HOH A 57 757 140 HOH HOH . L 5 HOH A 58 758 141 HOH HOH . L 5 HOH A 59 759 142 HOH HOH . L 5 HOH A 60 760 146 HOH HOH . L 5 HOH A 61 761 153 HOH HOH . M 5 HOH B 1 701 2 HOH HOH . M 5 HOH B 2 702 3 HOH HOH . M 5 HOH B 3 703 5 HOH HOH . M 5 HOH B 4 704 7 HOH HOH . M 5 HOH B 5 705 8 HOH HOH . M 5 HOH B 6 706 14 HOH HOH . M 5 HOH B 7 707 15 HOH HOH . M 5 HOH B 8 708 17 HOH HOH . M 5 HOH B 9 709 18 HOH HOH . M 5 HOH B 10 710 19 HOH HOH . M 5 HOH B 11 711 20 HOH HOH . M 5 HOH B 12 712 21 HOH HOH . M 5 HOH B 13 713 22 HOH HOH . M 5 HOH B 14 714 25 HOH HOH . M 5 HOH B 15 715 29 HOH HOH . M 5 HOH B 16 716 30 HOH HOH . M 5 HOH B 17 717 33 HOH HOH . M 5 HOH B 18 718 35 HOH HOH . M 5 HOH B 19 719 36 HOH HOH . M 5 HOH B 20 720 37 HOH HOH . M 5 HOH B 21 721 38 HOH HOH . M 5 HOH B 22 722 39 HOH HOH . M 5 HOH B 23 723 40 HOH HOH . M 5 HOH B 24 724 45 HOH HOH . M 5 HOH B 25 725 47 HOH HOH . M 5 HOH B 26 726 48 HOH HOH . M 5 HOH B 27 727 49 HOH HOH . M 5 HOH B 28 728 55 HOH HOH . M 5 HOH B 29 729 56 HOH HOH . M 5 HOH B 30 730 59 HOH HOH . M 5 HOH B 31 731 62 HOH HOH . M 5 HOH B 32 732 63 HOH HOH . M 5 HOH B 33 733 65 HOH HOH . M 5 HOH B 34 734 66 HOH HOH . M 5 HOH B 35 735 70 HOH HOH . M 5 HOH B 36 736 71 HOH HOH . M 5 HOH B 37 737 73 HOH HOH . M 5 HOH B 38 738 77 HOH HOH . M 5 HOH B 39 739 79 HOH HOH . M 5 HOH B 40 740 82 HOH HOH . M 5 HOH B 41 741 85 HOH HOH . M 5 HOH B 42 742 86 HOH HOH . M 5 HOH B 43 743 88 HOH HOH . M 5 HOH B 44 744 89 HOH HOH . M 5 HOH B 45 745 90 HOH HOH . M 5 HOH B 46 746 92 HOH HOH . M 5 HOH B 47 747 97 HOH HOH . M 5 HOH B 48 748 98 HOH HOH . M 5 HOH B 49 749 99 HOH HOH . M 5 HOH B 50 750 117 HOH HOH . M 5 HOH B 51 751 126 HOH HOH . M 5 HOH B 52 752 127 HOH HOH . M 5 HOH B 53 753 128 HOH HOH . M 5 HOH B 54 754 133 HOH HOH . M 5 HOH B 55 755 135 HOH HOH . M 5 HOH B 56 756 144 HOH HOH . M 5 HOH B 57 757 149 HOH HOH . M 5 HOH B 58 758 151 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 C 29E . . . E 3 102.813 14.343 39.41 1 42.44 ? C 29E 603 A 1 HETATM 2 N N 29E . . . E 3 102.992 14.416 37.978 1 50.47 ? N 29E 603 A 1 HETATM 3 C C1 29E . . . E 3 101.89 14.047 37.114 1 56.83 ? C1 29E 603 A 1 HETATM 4 C C2 29E . . . E 3 101.261 15.317 36.577 1 56.24 ? C2 29E 603 A 1 HETATM 5 C C3 29E . . . E 3 99.881 15.097 35.997 1 55.99 ? C3 29E 603 A 1 HETATM 6 C C14 29E . . . E 3 99.338 16.46 35.841 1 65.66 ? C14 29E 603 A 1 HETATM 7 S S 29E . . . E 3 98.563 17.347 37.096 1 89.53 ? S 29E 603 A 1 HETATM 8 C C17 29E . . . E 3 98.32 18.741 36.092 1 77.67 ? C17 29E 603 A 1 HETATM 9 C C16 29E . . . E 3 98.861 18.454 34.841 1 68.24 ? C16 29E 603 A 1 HETATM 10 C C15 29E . . . E 3 99.447 17.191 34.675 1 56.85 ? C15 29E 603 A 1 HETATM 11 O O 29E . . . E 3 100.022 14.482 34.721 1 49.32 ? O 29E 603 A 1 HETATM 12 C C4 29E . . . E 3 98.957 13.842 34.151 1 49.17 ? C4 29E 603 A 1 HETATM 13 C C13 29E . . . E 3 98.779 13.835 32.681 1 47.14 ? C13 29E 603 A 1 HETATM 14 C C12 29E . . . E 3 99.664 14.477 31.832 1 41.92 ? C12 29E 603 A 1 HETATM 15 C C11 29E . . . E 3 99.422 14.434 30.463 1 42.5 ? C11 29E 603 A 1 HETATM 16 C C10 29E . . . E 3 98.33 13.758 29.932 1 38.04 ? C10 29E 603 A 1 HETATM 17 C C9 29E . . . E 3 97.408 13.11 30.751 1 44.13 ? C9 29E 603 A 1 HETATM 18 C C8 29E . . . E 3 97.604 13.128 32.124 1 43.5 ? C8 29E 603 A 1 HETATM 19 C C7 29E . . . E 3 96.726 12.495 32.99 1 50.73 ? C7 29E 603 A 1 HETATM 20 C C6 29E . . . E 3 96.938 12.525 34.367 1 51.51 ? C6 29E 603 A 1 HETATM 21 C C5 29E . . . E 3 98.025 13.181 34.938 1 48.11 ? C5 29E 603 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 21 #