data_7ZDL # _model_server_result.job_id qf3Dd_BcNAF3SUmzEo1VuQ _model_server_result.datetime_utc '2025-02-17 11:27:33' _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 7zdl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":603}' # _entry.id 7ZDL # _exptl.entry_id 7ZDL _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 506.196 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 E N N ? 5 G 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 NE2 HIS 85 C HIS 85 1_555 C FE HEB . C HEB 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc2 A OG SER 380 C SER 380 1_555 D MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc3 A OE1 GLN 421 C GLN 421 1_555 D MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc4 C FE HEB . C HEB 601 1_555 B NE2 HIS 312 D HIS 312 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.628 ? metalc ? metalc5 D MG MG . C MG 602 1_555 E O1G ANP . C ANP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc6 D MG MG . C MG 602 1_555 E O2B ANP . C ANP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc7 B OE1 GLN 430 D GLN 430 1_555 F MG MG . D MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc8 F MG MG . D MG 601 1_555 G O3G ANP . D ANP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc9 F MG MG . D MG 601 1_555 G O1B ANP . D ANP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 7ZDL _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 3 HEB C 1 601 1 HEB HEB . D 4 MG C 1 602 1 MG MG . E 5 ANP C 1 603 3 ANP ANP . F 4 MG D 1 601 2 MG MG . G 5 ANP D 1 602 4 ANP ANP . # 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 P PG ANP . . . E 5 143.345 110.63 105.352 1 57.94 ? PG ANP 603 C 1 HETATM 2 O O1G ANP . . . E 5 143.663 110.948 106.787 1 57.94 ? O1G ANP 603 C 1 HETATM 3 O O2G ANP . . . E 5 141.871 110.334 105.243 1 57.94 ? O2G ANP 603 C 1 HETATM 4 O O3G ANP . . . E 5 143.652 111.854 104.527 1 57.94 ? O3G ANP 603 C 1 HETATM 5 P PB ANP . . . E 5 144.459 107.97 105.636 1 57.94 ? PB ANP 603 C 1 HETATM 6 O O1B ANP . . . E 5 145.356 107.021 104.895 1 57.94 ? O1B ANP 603 C 1 HETATM 7 O O2B ANP . . . E 5 144.718 108.204 107.095 1 57.94 ? O2B ANP 603 C 1 HETATM 8 N N3B ANP . . . E 5 144.244 109.371 104.837 1 57.94 ? N3B ANP 603 C 1 HETATM 9 P PA ANP . . . E 5 142.516 105.963 106.435 1 57.94 ? PA ANP 603 C 1 HETATM 10 O O1A ANP . . . E 5 143.593 104.933 106.43 1 57.94 -1 O1A ANP 603 C 1 HETATM 11 O O2A ANP . . . E 5 141.946 106.414 107.736 1 57.94 ? O2A ANP 603 C 1 HETATM 12 O O3A ANP . . . E 5 143.038 107.243 105.629 1 57.94 ? O3A ANP 603 C 1 HETATM 13 O O5' ANP . . . E 5 141.333 105.472 105.481 1 57.94 ? O5' ANP 603 C 1 HETATM 14 C C5' ANP . . . E 5 140.688 104.215 105.787 1 57.94 ? C5' ANP 603 C 1 HETATM 15 C C4' ANP . . . E 5 139.731 103.878 104.673 1 57.94 ? C4' ANP 603 C 1 HETATM 16 O O4' ANP . . . E 5 138.864 102.793 105.087 1 57.94 ? O4' ANP 603 C 1 HETATM 17 C C3' ANP . . . E 5 138.784 105.016 104.261 1 57.94 ? C3' ANP 603 C 1 HETATM 18 O O3' ANP . . . E 5 139.237 105.708 103.104 1 57.94 ? O3' ANP 603 C 1 HETATM 19 C C2' ANP . . . E 5 137.445 104.298 104.084 1 57.94 ? C2' ANP 603 C 1 HETATM 20 O O2' ANP . . . E 5 137.392 103.628 102.845 1 57.94 ? O2' ANP 603 C 1 HETATM 21 C C1' ANP . . . E 5 137.556 103.291 105.22 1 57.94 ? C1' ANP 603 C 1 HETATM 22 N N9 ANP . . . E 5 137.416 103.874 106.547 1 57.94 ? N9 ANP 603 C 1 HETATM 23 C C8 ANP . . . E 5 138.252 104.763 107.171 1 57.94 ? C8 ANP 603 C 1 HETATM 24 N N7 ANP . . . E 5 137.839 105.085 108.375 1 57.94 ? N7 ANP 603 C 1 HETATM 25 C C5 ANP . . . E 5 136.67 104.356 108.553 1 57.94 ? C5 ANP 603 C 1 HETATM 26 C C6 ANP . . . E 5 135.761 104.255 109.622 1 57.94 ? C6 ANP 603 C 1 HETATM 27 N N6 ANP . . . E 5 135.89 104.914 110.769 1 57.94 ? N6 ANP 603 C 1 HETATM 28 N N1 ANP . . . E 5 134.7 103.43 109.46 1 57.94 ? N1 ANP 603 C 1 HETATM 29 C C2 ANP . . . E 5 134.576 102.765 108.305 1 57.94 ? C2 ANP 603 C 1 HETATM 30 N N3 ANP . . . E 5 135.365 102.781 107.236 1 57.94 ? N3 ANP 603 C 1 HETATM 31 C C4 ANP . . . E 5 136.405 103.606 107.429 1 57.94 ? C4 ANP 603 C 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #