data_2W78 # _model_server_result.job_id gzPLCdIZvkefBxUgz0AY8w _model_server_result.datetime_utc '2024-11-22 05:02:22' _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 2w78 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":1}' # _entry.id 2W78 # _exptl.entry_id 2W78 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 376.341 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1S)-1-CARBOXY-5-[(3-CARBOXYPROPANOYL)AMINO]-8,9-DIHYDROXY-1,2,3,4-TETRAHYDROPYRIMIDO[1,2-A]QUINOLIN-11-IUM _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 130.43 _cell.angle_gamma 90 _cell.entry_id 2W78 _cell.length_a 191.556 _cell.length_b 130.937 _cell.length_c 139.367 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2W78 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,G,H,I,J,K 1 1 B,C,L,M,N,O,P,Q 2 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 5 _struct_asym.id P _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 P C15 PVE . C PVE 1 1_555 C N SER 1 C SER 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.261 ? covale ? covale2 C C GLY 3 C GLY 5 1_555 C N FHO 4 C FHO 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 C C FHO 4 C FHO 6 1_555 C N LYS 5 C LYS 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 C C LYS 5 C LYS 7 1_555 C N FH7 6 C FH7 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale5 C C FH7 6 C FH7 8 1_555 C N SER 7 C SER 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 P O25 PVE . C PVE 1 1_555 Q FE FE . C FE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc2 P O26 PVE . C PVE 1 1_555 Q FE FE . C FE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc3 Q FE FE . C FE 2 1_555 C NE FHO 4 C FHO 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.756 ? metalc ? metalc4 Q FE FE . C FE 2 1_555 C OZ FHO 4 C FHO 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc5 Q FE FE . C FE 2 1_555 C CZ FHO 4 C FHO 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? metalc ? metalc6 Q FE FE . C FE 2 1_555 C OH FHO 4 C FHO 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc7 Q FE FE . C FE 2 1_555 C NE FH7 6 C FH7 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc8 Q FE FE . C FE 2 1_555 C OZ FH7 6 C FH7 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc9 Q FE FE . C FE 2 1_555 C CZ FH7 6 C FH7 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.472 ? metalc ? metalc10 Q FE FE . C FE 2 1_555 C OH FH7 6 C FH7 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? # _chem_comp.formula 'C17 H18 N3 O7 1' _chem_comp.formula_weight 376.341 _chem_comp.id PVE _chem_comp.mon_nstd_flag . _chem_comp.name (1S)-1-CARBOXY-5-[(3-CARBOXYPROPANOYL)AMINO]-8,9-DIHYDROXY-1,2,3,4-TETRAHYDROPYRIMIDO[1,2-A]QUINOLIN-11-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 O23 C22 PVE doub 373 n n C22 O24 PVE sing 374 n n C22 C21 PVE sing 375 n n C21 C20 PVE sing 376 n n C20 C18 PVE sing 377 n n C18 O19 PVE doub 378 n n C18 N17 PVE sing 379 n n N17 C3 PVE sing 380 n n C3 C4 PVE doub 381 n y C3 C2 PVE sing 382 n y C4 C10 PVE sing 383 n y C10 C5 PVE sing 384 n y C10 C9 PVE doub 385 n y C5 C6 PVE doub 386 n y C6 O25 PVE sing 387 n n C6 C7 PVE sing 388 n y C7 O26 PVE sing 389 n n C7 C8 PVE doub 390 n y C8 C9 PVE sing 391 n y C9 N1 PVE sing 392 n y N1 C14 PVE sing 393 n n N1 C2 PVE doub 394 n y C14 C15 PVE sing 395 n n C14 C13 PVE sing 396 n n C15 O16 PVE doub 397 n n C15 OXT PVE sing 398 n n C2 N11 PVE sing 399 n n N11 C12 PVE sing 400 n n C12 C13 PVE sing 401 n n O24 H24 PVE sing 402 n n C21 H211 PVE sing 403 n n C21 H212 PVE sing 404 n n C20 H201 PVE sing 405 n n C20 H202 PVE sing 406 n n N17 H17 PVE sing 407 n n C4 H4 PVE sing 408 n n C5 H5 PVE sing 409 n n O25 H25 PVE sing 410 n n O26 H26 PVE sing 411 n n C8 H8 PVE sing 412 n n C14 H14 PVE sing 413 n n C13 H131 PVE sing 414 n n C13 H132 PVE sing 415 n n OXT HOT PVE sing 416 n n N11 H11 PVE sing 417 n n C12 H121 PVE sing 418 n n C12 H122 PVE sing 419 n n # _atom_sites.entry_id 2W78 _atom_sites.fract_transf_matrix[1][1] 0.00522 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004448 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007637 _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] 0.009426 _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 3 N8E A 1 1816 1816 N8E N8E . E 3 N8E A 1 1817 1817 N8E N8E . F 4 PO4 A 1 1818 1818 PO4 PO4 . G 4 PO4 A 1 1819 1819 PO4 PO4 . H 4 PO4 A 1 1820 1820 PO4 PO4 . I 4 PO4 A 1 1821 1821 PO4 PO4 . J 4 PO4 A 1 1822 1822 PO4 PO4 . K 4 PO4 A 1 1823 1823 PO4 PO4 . L 4 PO4 B 1 1816 1816 PO4 PO4 . M 4 PO4 B 1 1817 1817 PO4 PO4 . N 4 PO4 B 1 1818 1818 PO4 PO4 . O 4 PO4 B 1 1819 1819 PO4 PO4 . P 5 PVE C 1 1 1 PVE PVE . Q 6 FE C 1 2 2 FE FE . # 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 O O23 PVE . . . P 5 -67.44 -28.484 22.039 0 59.54 ? O23 PVE 1 C 1 HETATM 2 C C22 PVE . . . P 5 -67.673 -27.365 21.511 0 60.02 ? C22 PVE 1 C 1 HETATM 3 O O24 PVE . . . P 5 -68.055 -26.346 22.152 0 62.05 ? O24 PVE 1 C 1 HETATM 4 C C21 PVE . . . P 5 -67.473 -27.237 20.021 0 56.82 ? C21 PVE 1 C 1 HETATM 5 C C20 PVE . . . P 5 -68.587 -27.936 19.236 0 54.59 ? C20 PVE 1 C 1 HETATM 6 C C18 PVE . . . P 5 -68.196 -29.101 19.516 1 53.27 ? C18 PVE 1 C 1 HETATM 7 O O19 PVE . . . P 5 -68.286 -29.716 18.435 1 52.64 ? O19 PVE 1 C 1 HETATM 8 N N17 PVE . . . P 5 -67.81 -29.646 20.693 1 48.28 ? N17 PVE 1 C 1 HETATM 9 C C3 PVE . . . P 5 -67.499 -31.038 20.811 1 47.62 ? C3 PVE 1 C 1 HETATM 10 C C4 PVE . . . P 5 -66.202 -31.533 20.669 1 46.78 ? C4 PVE 1 C 1 HETATM 11 C C10 PVE . . . P 5 -65.921 -32.899 20.834 1 46.73 ? C10 PVE 1 C 1 HETATM 12 C C5 PVE . . . P 5 -64.619 -33.391 20.716 1 47.68 ? C5 PVE 1 C 1 HETATM 13 C C6 PVE . . . P 5 -64.357 -34.763 20.871 1 47.92 ? C6 PVE 1 C 1 HETATM 14 O O25 PVE . . . P 5 -63.131 -35.344 20.765 1 47.55 ? O25 PVE 1 C 1 HETATM 15 C C7 PVE . . . P 5 -65.357 -35.621 21.155 1 46.78 ? C7 PVE 1 C 1 HETATM 16 O O26 PVE . . . P 5 -64.922 -36.885 21.277 1 47.17 ? O26 PVE 1 C 1 HETATM 17 C C8 PVE . . . P 5 -66.664 -35.174 21.278 1 45.94 ? C8 PVE 1 C 1 HETATM 18 C C9 PVE . . . P 5 -66.944 -33.805 21.12 1 47.45 ? C9 PVE 1 C 1 HETATM 19 N N1 PVE . . . P 5 -68.199 -33.318 21.238 1 48.95 ? N1 PVE 1 C 1 HETATM 20 C C14 PVE . . . P 5 -69.279 -34.247 21.573 1 48.47 ? C14 PVE 1 C 1 HETATM 21 C C15 PVE . . . P 5 -70.044 -34.634 20.354 1 53.83 ? C15 PVE 1 C 1 HETATM 22 O O16 PVE . . . P 5 -69.974 -33.896 19.389 1 54.75 ? O16 PVE 1 C 1 HETATM 23 C C2 PVE . . . P 5 -68.498 -31.982 21.096 1 48.39 ? C2 PVE 1 C 1 HETATM 24 N N11 PVE . . . P 5 -69.803 -31.558 21.222 1 47.44 ? N11 PVE 1 C 1 HETATM 25 C C12 PVE . . . P 5 -70.825 -32.308 21.945 1 46.57 ? C12 PVE 1 C 1 HETATM 26 C C13 PVE . . . P 5 -70.15 -33.515 22.58 1 47.69 ? C13 PVE 1 C 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 26 #