data_7D12 # _model_server_result.job_id Su1fRG-uLx6MX3-LBSM5Ew _model_server_result.datetime_utc '2025-09-01 01:53:31' _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 7d12 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":101}' # _entry.id 7D12 # _exptl.entry_id 7D12 _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 336.519 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N'-{(Z)-amino[4-(amino{[3-(dimethylammonio)propyl]iminio}methyl)phenyl]methylidene}-N,N-dimethylpropane-1,3-diaminium" _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,L,M,N,O,P,Q _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 2 _struct_asym.id B _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 metalc ? metalc1 A OP1 C 2 A C 2 1_555 Q NA NA . A NA 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.816 ? metalc ? metalc2 A OP2 A 3 A A 3 1_555 Q NA NA . A NA 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? metalc ? metalc3 A OP1 A 6 A A 6 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc4 A OP2 G 7 A G 7 1_555 C NA NA . A NA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc5 A OP1 G 7 A G 7 1_555 G NA NA . A NA 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.216 ? metalc ? metalc6 A OP1 G 7 A G 7 1_555 N NA NA . A NA 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc7 A OP1 C 8 A C 8 1_555 N NA NA . A NA 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc8 A OP1 U 9 A U 9 1_555 F NA NA . A NA 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc9 A O5' G 13 A G 13 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.6 ? metalc ? metalc10 A OP2 C 14 A C 14 1_555 E NA NA . A NA 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc11 A O3' G 16 A G 16 1_555 H NA NA . A NA 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.71 ? metalc ? metalc12 A OP1 C 17 A C 17 1_555 H NA NA . A NA 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc13 A OP2 G 19 A G 19 1_555 D NA NA . A NA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.218 ? hydrog WATSON-CRICK hydrog1 A N1 G 1 A G 1 1_555 A N3 C 20 A C 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 G 1 A G 1 1_555 A O2 C 20 A C 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 G 1 A G 1 1_555 A N4 C 20 A C 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N3 C 2 A C 2 1_555 A N1 G 19 A G 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N4 C 2 A C 2 1_555 A O6 G 19 A G 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O2 C 2 A C 2 1_555 A N2 G 19 A G 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-A MISPAIR' hydrog7 A N1 A 3 A A 3 1_555 A N6 A 18 A A 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N1 G 4 A G 4 1_555 A N3 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N2 G 4 A G 4 1_555 A O2 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A O6 G 4 A G 4 1_555 A N4 C 17 A C 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N3 C 5 A C 5 1_555 A N1 G 16 A G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N4 C 5 A C 5 1_555 A O6 G 16 A G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A O2 C 5 A C 5 1_555 A N2 G 16 A G 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N1 G 7 A G 7 1_555 A N3 C 14 A C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N2 G 7 A G 7 1_555 A O2 C 14 A C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O6 G 7 A G 7 1_555 A N4 C 14 A C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 C 8 A C 8 1_555 A N1 G 13 A G 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N4 C 8 A C 8 1_555 A O6 G 13 A G 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O2 C 8 A C 8 1_555 A N2 G 13 A G 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'U-C MISPAIR' hydrog20 A O2 U 9 A U 9 1_555 A N4 C 11 A C 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C18 H36 N6 4' _chem_comp.formula_weight 336.519 _chem_comp.id L94 _chem_comp.mon_nstd_flag . _chem_comp.name "N'-{(Z)-amino[4-(amino{[3-(dimethylammonio)propyl]iminio}methyl)phenyl]methylidene}-N,N-dimethylpropane-1,3-diaminium" _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 C1 C2 L94 doub 116 n y C1 C6 L94 sing 117 n y C1 C11 L94 sing 118 n n C2 C3 L94 sing 119 n y C2 H2 L94 sing 120 n n C3 C4 L94 doub 121 n y C3 H3 L94 sing 122 n n C4 C5 L94 sing 123 n y C4 C14 L94 sing 124 n n C5 C6 L94 doub 125 n y C5 H5 L94 sing 126 n n C6 H6 L94 sing 127 n n C11 N111 L94 sing 128 n n C11 N21 L94 doub 129 n n N111 H111 L94 sing 130 n n N111 H11A L94 sing 131 n n N114 C14 L94 sing 132 n n N114 H411 L94 sing 133 n n N114 H41A L94 sing 134 n n C14 N24 L94 doub 135 n n N21 C31 L94 sing 136 n n N21 H121 L94 sing 137 n n N24 C34 L94 sing 138 n n N24 H424 L94 sing 139 n n C31 C41 L94 sing 140 n n C31 H131 L94 sing 141 n n C31 H13A L94 sing 142 n n C34 C44 L94 sing 143 n n C34 H434 L94 sing 144 n n C34 H43A L94 sing 145 n n C41 C51 L94 sing 146 n n C41 H141 L94 sing 147 n n C41 H14A L94 sing 148 n n C44 C54 L94 sing 149 n n C44 H444 L94 sing 150 n n C44 H44A L94 sing 151 n n C51 N61 L94 sing 152 n n C51 H151 L94 sing 153 n n C51 H15A L94 sing 154 n n C54 N64 L94 sing 155 n n C54 H454 L94 sing 156 n n C54 H45A L94 sing 157 n n N61 C71 L94 sing 158 n n N61 C81 L94 sing 159 n n N61 H161 L94 sing 160 n n N64 C74 L94 sing 161 n n N64 C84 L94 sing 162 n n N64 H464 L94 sing 163 n n C71 H171 L94 sing 164 n n C71 H17A L94 sing 165 n n C71 H17B L94 sing 166 n n C74 H474 L94 sing 167 n n C74 H47A L94 sing 168 n n C74 H47B L94 sing 169 n n C81 H181 L94 sing 170 n n C81 H18A L94 sing 171 n n C81 H18B L94 sing 172 n n C84 H484 L94 sing 173 n n C84 H48A L94 sing 174 n n C84 H48B L94 sing 175 n n # _atom_sites.entry_id 7D12 _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 B 2 L94 A 1 101 21 L94 UNK . C 3 NA A 1 102 22 NA NA . D 3 NA A 1 103 23 NA NA . E 3 NA A 1 104 24 NA NA . F 3 NA A 1 105 25 NA NA . G 3 NA A 1 106 26 NA NA . H 3 NA A 1 107 27 NA NA . I 3 NA A 1 108 28 NA NA . J 3 NA A 1 109 29 NA NA . K 3 NA A 1 110 30 NA NA . L 3 NA A 1 111 31 NA NA . M 3 NA A 1 112 32 NA NA . N 3 NA A 1 113 33 NA NA . O 3 NA A 1 114 34 NA NA . P 3 NA A 1 115 35 NA NA . Q 3 NA A 1 116 36 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 C1 L94 . . . B 2 36.386 27.262 32.925 1 0 ? C1 L94 101 A 1 HETATM 2 C C2 L94 . . . B 2 35.505 28.338 33.318 1 0 ? C2 L94 101 A 1 HETATM 3 C C3 L94 . . . B 2 34.165 28.344 33.013 1 0 ? C3 L94 101 A 1 HETATM 4 C C4 L94 . . . B 2 33.544 27.226 32.347 1 0 ? C4 L94 101 A 1 HETATM 5 C C5 L94 . . . B 2 34.412 26.159 31.918 1 0 ? C5 L94 101 A 1 HETATM 6 C C6 L94 . . . B 2 35.779 26.196 32.163 1 0 ? C6 L94 101 A 1 HETATM 7 C C11 L94 . . . B 2 37.729 27.278 33.234 1 0 ? C11 L94 101 A 1 HETATM 8 N N111 L94 . . . B 2 38.3 28.206 34.056 1 0 ? N111 L94 101 A 1 HETATM 9 N N114 L94 . . . B 2 31.424 26.178 31.71 1 0 ? N114 L94 101 A 1 HETATM 10 C C14 L94 . . . B 2 32.192 27.212 32.146 1 0 ? C14 L94 101 A 1 HETATM 11 N N21 L94 . . . B 2 38.711 26.39 32.847 1 0 ? N21 L94 101 A 1 HETATM 12 N N24 L94 . . . B 2 31.335 28.183 32.585 1 0 ? N24 L94 101 A 1 HETATM 13 C C31 L94 . . . B 2 39.621 26.657 31.719 1 0 ? C31 L94 101 A 1 HETATM 14 C C34 L94 . . . B 2 30.615 28.093 33.866 1 0 ? C34 L94 101 A 1 HETATM 15 C C41 L94 . . . B 2 40.655 25.541 31.516 1 0 ? C41 L94 101 A 1 HETATM 16 C C44 L94 . . . B 2 29.733 29.319 34.017 1 0 ? C44 L94 101 A 1 HETATM 17 C C51 L94 . . . B 2 41.729 25.487 32.623 1 0 ? C51 L94 101 A 1 HETATM 18 C C54 L94 . . . B 2 28.703 29.479 32.91 1 0 ? C54 L94 101 A 1 HETATM 19 N N61 L94 . . . B 2 42.944 24.642 32.257 1 0 ? N61 L94 101 A 1 HETATM 20 N N64 L94 . . . B 2 27.861 30.715 33.164 1 0 ? N64 L94 101 A 1 HETATM 21 C C71 L94 . . . B 2 42.552 23.194 31.96 1 0 ? C71 L94 101 A 1 HETATM 22 C C74 L94 . . . B 2 26.494 30.426 32.567 1 0 ? C74 L94 101 A 1 HETATM 23 C C81 L94 . . . B 2 43.948 24.644 33.413 1 0 ? C81 L94 101 A 1 HETATM 24 C C84 L94 . . . B 2 28.481 31.896 32.393 1 0 ? C84 L94 101 A 1 HETATM 25 H H2 L94 . . . B 2 35.935 29.184 33.845 1 0 ? H2 L94 101 A 1 HETATM 26 H H3 L94 . . . B 2 33.583 29.217 33.318 1 0 ? H3 L94 101 A 1 HETATM 27 H H5 L94 . . . B 2 33.997 25.314 31.388 1 0 ? H5 L94 101 A 1 HETATM 28 H H6 L94 . . . B 2 36.388 25.364 31.827 1 0 ? H6 L94 101 A 1 HETATM 29 H H111 L94 . . . B 2 39.317 28.123 34.131 1 0 ? H111 L94 101 A 1 HETATM 30 H H411 L94 . . . B 2 31.711 25.759 30.825 1 0 ? H411 L94 101 A 1 HETATM 31 H H11A L94 . . . B 2 37.836 28.366 34.966 1 0 ? H11A L94 101 A 1 HETATM 32 H H41A L94 . . . B 2 30.428 26.43 31.627 1 0 ? H41A L94 101 A 1 HETATM 33 H H121 L94 . . . B 2 38.563 25.398 33.151 1 0 ? H121 L94 101 A 1 HETATM 34 H H424 L94 . . . B 2 31.394 29.1 32.084 1 0 ? H424 L94 101 A 1 HETATM 35 H H131 L94 . . . B 2 40.134 27.603 31.887 1 0 ? H131 L94 101 A 1 HETATM 36 H H434 L94 . . . B 2 31.327 28.076 34.701 1 0 ? H434 L94 101 A 1 HETATM 37 H H13A L94 . . . B 2 39.059 26.789 30.788 1 0 ? H13A L94 101 A 1 HETATM 38 H H43A L94 . . . B 2 29.943 27.204 33.924 1 0 ? H43A L94 101 A 1 HETATM 39 H H141 L94 . . . B 2 41.136 25.698 30.55 1 0 ? H141 L94 101 A 1 HETATM 40 H H444 L94 . . . B 2 30.323 30.218 34.098 1 0 ? H444 L94 101 A 1 HETATM 41 H H14A L94 . . . B 2 40.138 24.585 31.435 1 0 ? H14A L94 101 A 1 HETATM 42 H H44A L94 . . . B 2 29.192 29.253 34.943 1 0 ? H44A L94 101 A 1 HETATM 43 H H151 L94 . . . B 2 41.289 25.069 33.536 1 0 ? H151 L94 101 A 1 HETATM 44 H H454 L94 . . . B 2 28.05 28.606 32.917 1 0 ? H454 L94 101 A 1 HETATM 45 H H15A L94 . . . B 2 42.088 26.514 32.815 1 0 ? H15A L94 101 A 1 HETATM 46 H H45A L94 . . . B 2 29.186 29.545 31.921 1 0 ? H45A L94 101 A 1 HETATM 47 H H161 L94 . . . B 2 43.398 25.04 31.389 1 0 ? H161 L94 101 A 1 HETATM 48 H H464 L94 . . . B 2 27.799 30.913 34.221 1 0 ? H464 L94 101 A 1 HETATM 49 H H171 L94 . . . B 2 41.891 23.148 31.087 1 0 ? H171 L94 101 A 1 HETATM 50 H H474 L94 . . . B 2 25.833 31.244 32.809 1 0 ? H474 L94 101 A 1 HETATM 51 H H17A L94 . . . B 2 42.034 22.805 32.828 1 0 ? H17A L94 101 A 1 HETATM 52 H H47A L94 . . . B 2 26.087 29.536 33.024 1 0 ? H47A L94 101 A 1 HETATM 53 H H17B L94 . . . B 2 43.452 22.585 31.778 1 0 ? H17B L94 101 A 1 HETATM 54 H H47B L94 . . . B 2 26.538 30.288 31.479 1 0 ? H47B L94 101 A 1 HETATM 55 H H181 L94 . . . B 2 43.458 24.253 34.299 1 0 ? H181 L94 101 A 1 HETATM 56 H H484 L94 . . . B 2 27.853 32.782 32.503 1 0 ? H484 L94 101 A 1 HETATM 57 H H18A L94 . . . B 2 44.299 25.665 33.601 1 0 ? H18A L94 101 A 1 HETATM 58 H H48A L94 . . . B 2 29.447 32.113 32.819 1 0 ? H48A L94 101 A 1 HETATM 59 H H18B L94 . . . B 2 44.801 23.987 33.165 1 0 ? H18B L94 101 A 1 HETATM 60 H H48B L94 . . . B 2 28.604 31.67 31.325 1 0 ? H48B L94 101 A 1 # _model_server_stats.io_time_ms 4 _model_server_stats.parse_time_ms 4 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 1779 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 60 #