data_3LP3 # _model_server_result.job_id g234I-wRPtU5AsZ6dsgUyw _model_server_result.datetime_utc '2024-11-14 22:46:57' _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 3lp3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":3}' # _entry.id 3LP3 # _exptl.entry_id 3LP3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 413.424 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-[4-(diethylamino)phenoxy]-6-(ethoxycarbonyl)-5,8-dihydroxy-7-oxo-7,8-dihydro-1,8-naphthyridin-1-ium _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 90 _cell.angle_gamma 120 _cell.entry_id 3LP3 _cell.length_a 51.256 _cell.length_b 51.256 _cell.length_c 112.773 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LP3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31' # 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,I 1 1 B,F,G,H,J 2 1 A,C,D,E,I 3 1 B,F,G,H,J 3 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' 1_445 x-1,y-1,z 1 0 0 0 1 0 0 0 1 -25.628 -44.388998 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 F 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 C MN MN . A MN 1 1_555 E O11 LP9 . A LP9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc2 C MN MN . A MN 1 1_555 E O12 LP9 . A LP9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.73 ? metalc ? metalc3 C MN MN . A MN 1 1_555 I O HOH . A HOH 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc4 C MN MN . A MN 1 1_555 A OD2 ASP 19 A ASP 443 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc5 C MN MN . A MN 1 1_555 A OD2 ASP 125 A ASP 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.941 ? metalc ? metalc6 D MN MN . A MN 2 1_555 E O12 LP9 . A LP9 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.72 ? metalc ? metalc7 D MN MN . A MN 2 1_555 A OD1 ASP 19 A ASP 443 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.379 ? metalc ? metalc8 D MN MN . A MN 2 1_555 A OE2 GLU 54 A GLU 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc9 D MN MN . A MN 2 1_555 A OD1 ASP 74 A ASP 498 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc10 F O12 LP9 . B LP9 1 1_555 G MN MN . B MN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc11 F O11 LP9 . B LP9 1 1_555 G MN MN . B MN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc12 F O12 LP9 . B LP9 1 1_555 H MN MN . B MN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc13 F N LP9 . B LP9 1 1_555 H MN MN . B MN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc14 G MN MN . B MN 2 1_555 B OD1 ASP 19 B ASP 443 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc15 G MN MN . B MN 2 1_555 B OD2 ASP 125 B ASP 549 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc16 H MN MN . B MN 3 1_555 B OD2 ASP 19 B ASP 443 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc17 H MN MN . B MN 3 1_555 B OE1 GLU 54 B GLU 478 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc18 H MN MN . B MN 3 1_555 B OD2 ASP 74 B ASP 498 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? # _chem_comp.formula 'C21 H23 N3 O6' _chem_comp.formula_weight 413.424 _chem_comp.id LP9 _chem_comp.mon_nstd_flag . _chem_comp.name 3-[4-(diethylamino)phenoxy]-6-(ethoxycarbonyl)-5,8-dihydroxy-7-oxo-7,8-dihydro-1,8-naphthyridin-1-ium _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 C C4 LP9 sing 181 n y C H LP9 sing 182 n n N C3 LP9 sing 183 n y O C8 LP9 sing 184 n n O H20 LP9 sing 185 n n C1 C LP9 doub 186 n y C1 C2 LP9 sing 187 n y C2 N LP9 doub 188 n y C2 H2 LP9 sing 189 n n C3 N5 LP9 sing 190 n n C4 C3 LP9 doub 191 n y C4 C8 LP9 sing 192 n n N5 C6 LP9 sing 193 n n N5 O12 LP9 sing 194 n n C6 O11 LP9 doub 195 n n C7 C6 LP9 sing 196 n n C7 C9 LP9 sing 197 n n C8 C7 LP9 doub 198 n n C9 O10 LP9 doub 199 n n O12 HO12 LP9 sing 200 n n O13 C1 LP9 sing 201 n n C14 O13 LP9 sing 202 n n C15 C14 LP9 sing 203 n y C15 H15 LP9 sing 204 n n C16 C15 LP9 doub 205 n y C16 H16 LP9 sing 206 n n C17 C16 LP9 sing 207 n y C17 C18 LP9 doub 208 n y C18 C19 LP9 sing 209 n y C18 H18 LP9 sing 210 n n C19 C14 LP9 doub 211 n y C19 H19 LP9 sing 212 n n N20 C17 LP9 sing 213 n n N20 C23 LP9 sing 214 n n C21 N20 LP9 sing 215 n n C21 H21 LP9 sing 216 n n C21 H21A LP9 sing 217 n n C22 C21 LP9 sing 218 n n C22 H22 LP9 sing 219 n n C22 H22A LP9 sing 220 n n C22 H22B LP9 sing 221 n n C23 H23 LP9 sing 222 n n C23 H211 LP9 sing 223 n n C24 C23 LP9 sing 224 n n C24 H24 LP9 sing 225 n n C24 H24A LP9 sing 226 n n C24 H221 LP9 sing 227 n n O25 C9 LP9 sing 228 n n C26 C27 LP9 sing 229 n n C26 H26 LP9 sing 230 n n C26 H26A LP9 sing 231 n n C26 H231 LP9 sing 232 n n C27 O25 LP9 sing 233 n n C27 H27 LP9 sing 234 n n C27 H241 LP9 sing 235 n n # _atom_sites.entry_id 3LP3 _atom_sites.fract_transf_matrix[1][1] 0.01951 _atom_sites.fract_transf_matrix[1][2] 0.011264 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022528 _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] 0.008867 _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 MN A 1 1 1 MN MN . D 2 MN A 1 2 2 MN MN . E 3 LP9 A 1 3 3 LP9 LP9 . F 3 LP9 B 1 1 1 LP9 LP9 . G 2 MN B 1 2 2 MN MN . H 2 MN B 1 3 3 MN MN . I 4 HOH A 1 4 4 HOH HOH . I 4 HOH A 2 6 6 HOH HOH . I 4 HOH A 3 7 7 HOH HOH . I 4 HOH A 4 10 10 HOH HOH . I 4 HOH A 5 11 11 HOH HOH . I 4 HOH A 6 13 13 HOH HOH . I 4 HOH A 7 16 16 HOH HOH . I 4 HOH A 8 563 1 HOH HOH . I 4 HOH A 9 564 3 HOH HOH . J 4 HOH B 1 4 4 HOH HOH . J 4 HOH B 2 5 5 HOH HOH . J 4 HOH B 3 8 8 HOH HOH . J 4 HOH B 4 9 9 HOH HOH . J 4 HOH B 5 12 12 HOH HOH . J 4 HOH B 6 14 14 HOH HOH . J 4 HOH B 7 15 15 HOH HOH . J 4 HOH B 8 17 17 HOH HOH . J 4 HOH B 9 18 18 HOH HOH . J 4 HOH B 10 563 2 HOH HOH . J 4 HOH B 11 564 5 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 LP9 . . . E 3 -20.567 17.54 34.562 1 73.08 ? C LP9 3 A 1 HETATM 2 N N LP9 . . . E 3 -19.059 18.543 36.603 1 73.05 ? N LP9 3 A 1 HETATM 3 O O LP9 . . . E 3 -21.916 19.392 32.933 1 73.06 ? O LP9 3 A 1 HETATM 4 C C1 LP9 . . . E 3 -19.871 16.664 35.402 1 73.09 ? C1 LP9 3 A 1 HETATM 5 C C2 LP9 . . . E 3 -19.107 17.199 36.44 1 73.06 ? C2 LP9 3 A 1 HETATM 6 C C3 LP9 . . . E 3 -19.724 19.409 35.798 1 73.06 ? C3 LP9 3 A 1 HETATM 7 C C4 LP9 . . . E 3 -20.505 18.924 34.742 1 73.09 ? C4 LP9 3 A 1 HETATM 8 N N5 LP9 . . . E 3 -19.656 20.749 35.985 1 73.03 ? N5 LP9 3 A 1 HETATM 9 C C6 LP9 . . . E 3 -20.281 21.689 35.238 1 73.04 ? C6 LP9 3 A 1 HETATM 10 C C7 LP9 . . . E 3 -21.063 21.223 34.181 1 73.06 ? C7 LP9 3 A 1 HETATM 11 C C8 LP9 . . . E 3 -21.173 19.853 33.938 1 73.06 ? C8 LP9 3 A 1 HETATM 12 C C9 LP9 . . . E 3 -21.797 22.17 33.287 1 73.08 ? C9 LP9 3 A 1 HETATM 13 O O10 LP9 . . . E 3 -23.012 22.185 33.162 1 72.87 ? O10 LP9 3 A 1 HETATM 14 O O11 LP9 . . . E 3 -20.167 22.99 35.481 1 73.05 ? O11 LP9 3 A 1 HETATM 15 O O12 LP9 . . . E 3 -18.868 21.176 37.047 1 73.05 ? O12 LP9 3 A 1 HETATM 16 O O13 LP9 . . . E 3 -19.887 15.331 35.276 1 73.14 ? O13 LP9 3 A 1 HETATM 17 C C14 LP9 . . . E 3 -19.512 14.773 34.118 1 73.37 ? C14 LP9 3 A 1 HETATM 18 C C15 LP9 . . . E 3 -18.364 15.251 33.477 1 73.48 ? C15 LP9 3 A 1 HETATM 19 C C16 LP9 . . . E 3 -17.953 14.692 32.267 1 73.54 ? C16 LP9 3 A 1 HETATM 20 C C17 LP9 . . . E 3 -18.638 13.644 31.644 1 73.6 ? C17 LP9 3 A 1 HETATM 21 C C18 LP9 . . . E 3 -19.78 13.189 32.314 1 73.52 ? C18 LP9 3 A 1 HETATM 22 C C19 LP9 . . . E 3 -20.223 13.729 33.525 1 73.41 ? C19 LP9 3 A 1 HETATM 23 N N20 LP9 . . . E 3 -18.225 13.114 30.472 1 73.76 ? N20 LP9 3 A 1 HETATM 24 C C21 LP9 . . . E 3 -16.976 12.355 30.345 1 73.98 ? C21 LP9 3 A 1 HETATM 25 C C22 LP9 . . . E 3 -17.064 10.966 30.991 1 74.05 ? C22 LP9 3 A 1 HETATM 26 C C23 LP9 . . . E 3 -18.996 13.259 29.231 1 74.04 ? C23 LP9 3 A 1 HETATM 27 C C24 LP9 . . . E 3 -19.08 14.713 28.745 1 74 ? C24 LP9 3 A 1 HETATM 28 O O25 LP9 . . . E 3 -20.907 22.961 32.677 1 73.23 ? O25 LP9 3 A 1 HETATM 29 C C26 LP9 . . . E 3 -20.601 25.35 32.327 1 73.11 ? C26 LP9 3 A 1 HETATM 30 C C27 LP9 . . . E 3 -21.419 24.111 31.947 1 73.37 ? C27 LP9 3 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 232 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 30 #