data_5ODM # _model_server_result.job_id nry_qeoSCqd-6r3BsqkQWw _model_server_result.datetime_utc '2024-10-19 11:45:42' _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 5odm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":109}' # _entry.id 5ODM # _exptl.entry_id 5ODM _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 175.272 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-(3-azaniumylpropanoylamino)propyl-dimethyl-azanium _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _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 _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 ? _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 L _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 covale ? covale1 A O3' DCZ 1 A DCZ 1 1_555 A P DG 2 A DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? covale ? covale2 C C81 9U2 . A 9U2 100 1_555 D N PYB . A PYB 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale3 D C PYB . A PYB 101 1_555 E N PYB . A PYB 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.388 ? covale ? covale4 E C PYB . A PYB 102 1_555 F N PYB . A PYB 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? covale ? covale5 F C PYB . A PYB 103 1_555 G N ABU . A ABU 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? covale ? covale6 G C ABU . A ABU 104 1_555 H N IMT . A IMT 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.377 ? covale ? covale7 H C IMT . A IMT 105 1_555 I N PYB . A PYB 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.394 ? covale ? covale8 I C PYB . A PYB 106 1_555 J N PYB . A PYB 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale9 J C PYB . A PYB 107 1_555 K N PYB . A PYB 108 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.385 ? covale ? covale10 K C PYB . A PYB 108 1_555 L N03 9T8 . A 9T8 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.378 ? covale ? covale11 B O3' DCZ 1 B DCZ 13 1_555 B P DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? hydrog WATSON-CRICK hydrog1 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DA 3 A DA 3 1_555 B N3 DT 10 B DT 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N6 DA 3 A DA 3 1_555 B O4 DT 10 B DT 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A N3 DT 4 A DT 4 1_555 B N1 DA 9 B DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A O4 DT 4 A DT 4 1_555 B N6 DA 9 B DA 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 DG 5 A DG 5 1_555 B N3 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N2 DG 5 A DG 5 1_555 B O2 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O6 DG 5 A DG 5 1_555 B N4 DC 8 B DC 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 DT 6 A DT 6 1_555 B N1 DA 7 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O4 DT 6 A DT 6 1_555 B N6 DA 7 B DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 7 A DA 7 1_555 B N3 DT 6 B DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 7 A DA 7 1_555 B O4 DT 6 B DT 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DC 8 A DC 8 1_555 B N1 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N4 DC 8 A DC 8 1_555 B O6 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O2 DC 8 A DC 8 1_555 B N2 DG 5 B DG 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N1 DA 9 A DA 9 1_555 B N3 DT 4 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N6 DA 9 A DA 9 1_555 B O4 DT 4 B DT 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A N3 DT 10 A DT 10 1_555 B N1 DA 3 B DA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A O4 DT 10 A DT 10 1_555 B N6 DA 3 B DA 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C8 H21 N3 O 2' _chem_comp.formula_weight 175.272 _chem_comp.id 9T8 _chem_comp.mon_nstd_flag . _chem_comp.name 3-(3-azaniumylpropanoylamino)propyl-dimethyl-azanium _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 C01 N01 9T8 sing 1 n n N01 C03 9T8 sing 2 n n N01 C02 9T8 sing 3 n n C03 C04 9T8 sing 4 n n C04 C05 9T8 sing 5 n n C05 N02 9T8 sing 6 n n N02 C06 9T8 sing 7 n n C06 O01 9T8 doub 8 n n C06 C07 9T8 sing 9 n n C07 C08 9T8 sing 10 n n C08 N03 9T8 sing 11 n n C01 H006 9T8 sing 12 n n C01 H004 9T8 sing 13 n n C01 H005 9T8 sing 14 n n N02 HN02 9T8 sing 15 n n C03 H031 9T8 sing 16 n n C03 H032 9T8 sing 17 n n C05 H052 9T8 sing 18 n n C05 H051 9T8 sing 19 n n C07 H072 9T8 sing 20 n n C07 H071 9T8 sing 21 n n C04 H042 9T8 sing 22 n n C04 H041 9T8 sing 23 n n N01 HN01 9T8 sing 24 n n C02 H001 9T8 sing 25 n n C02 H002 9T8 sing 26 n n C02 H003 9T8 sing 27 n n N03 H1 9T8 sing 28 n n N03 H2 9T8 sing 29 n n N03 HN03 9T8 sing 30 n n C08 H081 9T8 sing 31 n n C08 H082 9T8 sing 32 n n # _atom_sites.entry_id 5ODM _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 9U2 A 1 100 25 9U2 PA7 . D 3 PYB A 1 101 25 PYB PA7 . E 3 PYB A 1 102 25 PYB PA7 . F 3 PYB A 1 103 25 PYB PA7 . G 4 ABU A 1 104 25 ABU PA7 . H 5 IMT A 1 105 25 IMT PA7 . I 3 PYB A 1 106 25 PYB PA7 . J 3 PYB A 1 107 25 PYB PA7 . K 3 PYB A 1 108 25 PYB PA7 . L 6 9T8 A 1 109 25 9T8 PA7 . # 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 C01 9T8 . . . L 6 11.415 18.851 26.674 1 0 ? C01 9T8 109 A 1 HETATM 2 N N02 9T8 . . . L 6 15.641 18.004 29.932 1 0 ? N02 9T8 109 A 1 HETATM 3 C C03 9T8 . . . L 6 13.222 17.692 27.922 1 0 ? C03 9T8 109 A 1 HETATM 4 C C05 9T8 . . . L 6 15.127 16.748 29.362 1 0 ? C05 9T8 109 A 1 HETATM 5 C C06 9T8 . . . L 6 14.94 18.756 30.847 1 0 ? C06 9T8 109 A 1 HETATM 6 C C07 9T8 . . . L 6 15.785 19.472 31.892 1 0 ? C07 9T8 109 A 1 HETATM 7 C C04 9T8 . . . L 6 14.54 16.897 27.941 1 0 ? C04 9T8 109 A 1 HETATM 8 N N01 9T8 . . . L 6 12.751 18.127 26.536 1 0 ? N01 9T8 109 A 1 HETATM 9 C C02 9T8 . . . L 6 12.578 16.933 25.597 1 0 ? C02 9T8 109 A 1 HETATM 10 N N03 9T8 . . . L 6 16.748 19.176 34.188 1 0 ? N03 9T8 109 A 1 HETATM 11 C C08 9T8 . . . L 6 16.226 18.492 32.996 1 0 ? C08 9T8 109 A 1 HETATM 12 O O01 9T8 . . . L 6 13.721 18.751 30.881 1 0 ? O01 9T8 109 A 1 HETATM 13 H H006 9T8 . . . L 6 10.671 18.161 27.077 1 0 ? H006 9T8 109 A 1 HETATM 14 H H004 9T8 . . . L 6 11.094 19.208 25.693 1 0 ? H004 9T8 109 A 1 HETATM 15 H H005 9T8 . . . L 6 11.53 19.701 27.352 1 0 ? H005 9T8 109 A 1 HETATM 16 H HN02 9T8 . . . L 6 16.655 18.097 29.985 1 0 ? HN02 9T8 109 A 1 HETATM 17 H H031 9T8 . . . L 6 12.434 17.092 28.381 1 0 ? H031 9T8 109 A 1 HETATM 18 H H032 9T8 . . . L 6 13.346 18.595 28.524 1 0 ? H032 9T8 109 A 1 HETATM 19 H H052 9T8 . . . L 6 15.959 16.033 29.325 1 0 ? H052 9T8 109 A 1 HETATM 20 H H051 9T8 . . . L 6 14.366 16.318 30.03 1 0 ? H051 9T8 109 A 1 HETATM 21 H H072 9T8 . . . L 6 15.178 20.278 32.318 1 0 ? H072 9T8 109 A 1 HETATM 22 H H071 9T8 . . . L 6 16.653 19.933 31.407 1 0 ? H071 9T8 109 A 1 HETATM 23 H H042 9T8 . . . L 6 15.265 17.372 27.277 1 0 ? H042 9T8 109 A 1 HETATM 24 H H041 9T8 . . . L 6 14.359 15.894 27.534 1 0 ? H041 9T8 109 A 1 HETATM 25 H HN01 9T8 . . . L 6 13.451 18.804 26.103 1 0 ? HN01 9T8 109 A 1 HETATM 26 H H001 9T8 . . . L 6 12.226 17.288 24.624 1 0 ? H001 9T8 109 A 1 HETATM 27 H H002 9T8 . . . L 6 11.847 16.24 26.02 1 0 ? H002 9T8 109 A 1 HETATM 28 H H003 9T8 . . . L 6 13.536 16.426 25.468 1 0 ? H003 9T8 109 A 1 HETATM 29 H H1 9T8 . . . L 6 17.719 19.462 34.216 1 0 ? H1 9T8 109 A 1 HETATM 30 H H081 9T8 . . . L 6 16.999 17.822 32.598 1 0 ? H081 9T8 109 A 1 HETATM 31 H H082 9T8 . . . L 6 15.369 17.867 33.281 1 0 ? H082 9T8 109 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 2849 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #