data_8PX9 # _model_server_result.job_id vP4725nYkw0pqXzMmqy9fQ _model_server_result.datetime_utc '2024-11-17 07:56:43' _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 8px9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":600}' # _entry.id 8PX9 # _exptl.entry_id 8PX9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _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 ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 8PX9 _cell.length_a 81.19 _cell.length_b 109.32 _cell.length_c 233.35 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PX9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E 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 OG SER 385 A SER 385 1_555 C MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc2 A OE1 GLN 426 A GLN 426 1_555 C MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc3 C MG MG . A MG 601 1_555 D O3G ANP . A ANP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.862 ? metalc ? metalc4 C MG MG . A MG 601 1_555 D O2B ANP . A ANP 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.193 ? metalc ? metalc5 B OG SER 385 B SER 385 1_555 F MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc6 B OE1 GLN 426 B GLN 426 1_555 F MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc7 E O3G ANP . B ANP 600 1_555 F MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc8 E O2B ANP . B ANP 600 1_555 F MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? # _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 8PX9 _atom_sites.fract_transf_matrix[1][1] 0.012317 _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] 0.009147 _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] 0.004285 _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 MG A 1 601 601 MG MG . D 3 ANP A 1 602 600 ANP ANP . E 3 ANP B 1 600 600 ANP ANP . F 2 MG B 1 601 601 MG MG . # 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 3 -17.781 -8.945 9.236 1 140 ? PG ANP 600 B 1 HETATM 2 O O1G ANP . . . E 3 -18.298 -9.413 7.918 1 149.62 ? O1G ANP 600 B 1 HETATM 3 O O2G ANP . . . E 3 -16.813 -9.994 9.762 1 140.16 ? O2G ANP 600 B 1 HETATM 4 O O3G ANP . . . E 3 -19.012 -8.803 10.101 1 151.14 ? O3G ANP 600 B 1 HETATM 5 P PB ANP . . . E 3 -17.634 -6.03 9.558 1 145.63 ? PB ANP 600 B 1 HETATM 6 O O1B ANP . . . E 3 -17.098 -5.033 8.562 1 140 ? O1B ANP 600 B 1 HETATM 7 O O2B ANP . . . E 3 -19.097 -6.047 9.928 1 143.36 ? O2B ANP 600 B 1 HETATM 8 N N3B ANP . . . E 3 -17.014 -7.514 9.266 1 139.6 ? N3B ANP 600 B 1 HETATM 9 P PA ANP . . . E 3 -17.128 -4.739 12.213 1 142.2 ? PA ANP 600 B 1 HETATM 10 O O1A ANP . . . E 3 -17.859 -3.459 11.92 1 126.71 ? O1A ANP 600 B 1 HETATM 11 O O2A ANP . . . E 3 -17.746 -5.751 13.125 1 134.52 ? O2A ANP 600 B 1 HETATM 12 O O3A ANP . . . E 3 -16.855 -5.626 10.904 1 150.84 ? O3A ANP 600 B 1 HETATM 13 O O5' ANP . . . E 3 -15.614 -4.418 12.648 1 134.99 ? O5' ANP 600 B 1 HETATM 14 C C5' ANP . . . E 3 -14.715 -3.68 11.785 1 141.74 ? C5' ANP 600 B 1 HETATM 15 C C4' ANP . . . E 3 -13.346 -3.546 12.418 1 149.09 ? C4' ANP 600 B 1 HETATM 16 O O4' ANP . . . E 3 -13.492 -2.911 13.71 1 145.97 ? O4' ANP 600 B 1 HETATM 17 C C3' ANP . . . E 3 -12.516 -4.822 12.667 1 154.97 ? C3' ANP 600 B 1 HETATM 18 O O3' ANP . . . E 3 -11.127 -4.566 12.501 1 168.7 ? O3' ANP 600 B 1 HETATM 19 C C2' ANP . . . E 3 -12.85 -5.161 14.122 1 148.56 ? C2' ANP 600 B 1 HETATM 20 O O2' ANP . . . E 3 -11.824 -5.847 14.803 1 146.49 ? O2' ANP 600 B 1 HETATM 21 C C1' ANP . . . E 3 -13.021 -3.77 14.727 1 150.74 ? C1' ANP 600 B 1 HETATM 22 N N9 ANP . . . E 3 -13.984 -3.728 15.851 1 156.22 ? N9 ANP 600 B 1 HETATM 23 C C8 ANP . . . E 3 -15.322 -4.112 15.851 1 158.5 ? C8 ANP 600 B 1 HETATM 24 N N7 ANP . . . E 3 -15.916 -3.944 17.002 1 150.52 ? N7 ANP 600 B 1 HETATM 25 C C5 ANP . . . E 3 -14.918 -3.428 17.805 1 147.88 ? C5 ANP 600 B 1 HETATM 26 C C6 ANP . . . E 3 -14.936 -3.015 19.142 1 142.56 ? C6 ANP 600 B 1 HETATM 27 N N6 ANP . . . E 3 -16.027 -3.119 19.893 1 147.14 ? N6 ANP 600 B 1 HETATM 28 N N1 ANP . . . E 3 -13.77 -2.549 19.671 1 147.98 ? N1 ANP 600 B 1 HETATM 29 C C2 ANP . . . E 3 -12.683 -2.468 18.879 1 148.28 ? C2 ANP 600 B 1 HETATM 30 N N3 ANP . . . E 3 -12.556 -2.814 17.596 1 149.12 ? N3 ANP 600 B 1 HETATM 31 C C4 ANP . . . E 3 -13.727 -3.279 17.113 1 152.38 ? C4 ANP 600 B 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 45 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #