data_9AXY # _model_server_result.job_id YzDk-4KmtAPSFRVrlLWiug _model_server_result.datetime_utc '2024-11-05 00:37:57' _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 9axy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":801}' # _entry.id 9AXY # _exptl.entry_id 9AXY _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 120 _cell.entry_id 9AXY _cell.length_a 117.097 _cell.length_b 117.097 _cell.length_c 129.424 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9AXY _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _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,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 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 C 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 A OD1 ASN 138 A ASN 581 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc2 A OD2 ASP 151 A ASP 594 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc3 C O2G ANP . A ANP 801 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc4 C O1B ANP . A ANP 801 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc5 C O1A ANP . A ANP 801 1_555 D MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc6 B OD1 ASN 196 B ASN 195 1_555 G MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc7 B OD2 ASP 209 B ASP 208 1_555 G MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc8 F O1B ANP . B ANP 402 1_555 G MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc9 F O2A ANP . B ANP 402 1_555 G MG MG . B MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? # _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 68 n n PG O2G ANP sing 69 n n PG O3G ANP sing 70 n n PG N3B ANP sing 71 n n O2G HOG2 ANP sing 72 n n O3G HOG3 ANP sing 73 n n PB O1B ANP doub 74 n n PB O2B ANP sing 75 n n PB N3B ANP sing 76 n n PB O3A ANP sing 77 n n O2B HOB2 ANP sing 78 n n N3B HNB1 ANP sing 79 n n PA O1A ANP doub 80 n n PA O2A ANP sing 81 n n PA O3A ANP sing 82 n n PA O5' ANP sing 83 n n O2A HOA2 ANP sing 84 n n O5' C5' ANP sing 85 n n C5' C4' ANP sing 86 n n C5' "H5'1" ANP sing 87 n n C5' "H5'2" ANP sing 88 n n C4' O4' ANP sing 89 n n C4' C3' ANP sing 90 n n C4' H4' ANP sing 91 n n O4' C1' ANP sing 92 n n C3' O3' ANP sing 93 n n C3' C2' ANP sing 94 n n C3' H3' ANP sing 95 n n O3' HO3' ANP sing 96 n n C2' O2' ANP sing 97 n n C2' C1' ANP sing 98 n n C2' H2' ANP sing 99 n n O2' HO2' ANP sing 100 n n C1' N9 ANP sing 101 n n C1' H1' ANP sing 102 n n N9 C8 ANP sing 103 n y N9 C4 ANP sing 104 n y C8 N7 ANP doub 105 n y C8 H8 ANP sing 106 n n N7 C5 ANP sing 107 n y C5 C6 ANP sing 108 n y C5 C4 ANP doub 109 n y C6 N6 ANP sing 110 n n C6 N1 ANP doub 111 n y N6 HN61 ANP sing 112 n n N6 HN62 ANP sing 113 n n N1 C2 ANP sing 114 n y C2 N3 ANP doub 115 n y C2 H2 ANP sing 116 n n N3 C4 ANP sing 117 n y # _atom_sites.entry_id 9AXY _atom_sites.fract_transf_matrix[1][1] 0.00854 _atom_sites.fract_transf_matrix[1][2] 0.004931 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009861 _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] 0.007727 _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 ANP A 1 801 1 ANP ANP . D 4 MG A 1 802 1 MG MG . E 5 A1AHE B 1 401 401 A1AHE 628 . F 3 ANP B 1 402 2 ANP ANP . G 4 MG B 1 403 2 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 . . . C 3 -42.723 28.921 -3.004 1 56.61 ? PG ANP 801 A 1 HETATM 2 O O1G ANP . . . C 3 -42.718 29.505 -1.628 1 59.35 ? O1G ANP 801 A 1 HETATM 3 O O2G ANP . . . C 3 -41.915 29.875 -3.963 1 64.19 ? O2G ANP 801 A 1 HETATM 4 O O3G ANP . . . C 3 -42.046 27.492 -2.972 1 56.19 ? O3G ANP 801 A 1 HETATM 5 P PB ANP . . . C 3 -44.959 30.183 -4.151 1 64.89 ? PB ANP 801 A 1 HETATM 6 O O1B ANP . . . C 3 -44.113 30.712 -5.258 1 61.06 ? O1B ANP 801 A 1 HETATM 7 O O2B ANP . . . C 3 -46.372 29.898 -4.734 1 61.9 ? O2B ANP 801 A 1 HETATM 8 N N3B ANP . . . C 3 -44.317 28.752 -3.548 1 58.39 ? N3B ANP 801 A 1 HETATM 9 P PA ANP . . . C 3 -44.23 32.587 -2.996 1 66.74 ? PA ANP 801 A 1 HETATM 10 O O1A ANP . . . C 3 -42.866 32.399 -3.543 1 68.36 ? O1A ANP 801 A 1 HETATM 11 O O2A ANP . . . C 3 -44.214 33.054 -1.538 1 68.8 ? O2A ANP 801 A 1 HETATM 12 O O3A ANP . . . C 3 -45.079 31.239 -3.008 1 69.46 ? O3A ANP 801 A 1 HETATM 13 O O5' ANP . . . C 3 -45.008 33.611 -3.922 1 64.56 ? O5' ANP 801 A 1 HETATM 14 C C5' ANP . . . C 3 -46.227 34.244 -3.475 1 65.52 ? C5' ANP 801 A 1 HETATM 15 C C4' ANP . . . C 3 -46.799 35.071 -4.601 1 66.34 ? C4' ANP 801 A 1 HETATM 16 O O4' ANP . . . C 3 -45.789 35.981 -5.093 1 63.2 ? O4' ANP 801 A 1 HETATM 17 C C3' ANP . . . C 3 -47.288 34.279 -5.814 1 69.88 ? C3' ANP 801 A 1 HETATM 18 O O3' ANP . . . C 3 -48.465 34.865 -6.36 1 73.26 ? O3' ANP 801 A 1 HETATM 19 C C2' ANP . . . C 3 -46.109 34.382 -6.782 1 67.67 ? C2' ANP 801 A 1 HETATM 20 O O2' ANP . . . C 3 -46.524 34.261 -8.138 1 69.69 ? O2' ANP 801 A 1 HETATM 21 C C1' ANP . . . C 3 -45.611 35.793 -6.482 1 68.43 ? C1' ANP 801 A 1 HETATM 22 N N9 ANP . . . C 3 -44.205 36.013 -6.803 1 71.8 ? N9 ANP 801 A 1 HETATM 23 C C8 ANP . . . C 3 -43.124 35.334 -6.305 1 71.34 ? C8 ANP 801 A 1 HETATM 24 N N7 ANP . . . C 3 -41.97 35.751 -6.771 1 70.93 ? N7 ANP 801 A 1 HETATM 25 C C5 ANP . . . C 3 -42.319 36.777 -7.635 1 68.54 ? C5 ANP 801 A 1 HETATM 26 C C6 ANP . . . C 3 -41.55 37.633 -8.45 1 71.65 ? C6 ANP 801 A 1 HETATM 27 N N6 ANP . . . C 3 -40.219 37.586 -8.528 1 72.71 ? N6 ANP 801 A 1 HETATM 28 N N1 ANP . . . C 3 -42.21 38.551 -9.193 1 73.91 ? N1 ANP 801 A 1 HETATM 29 C C2 ANP . . . C 3 -43.543 38.602 -9.119 1 75.18 ? C2 ANP 801 A 1 HETATM 30 N N3 ANP . . . C 3 -44.371 37.85 -8.388 1 74.57 ? N3 ANP 801 A 1 HETATM 31 C C4 ANP . . . C 3 -43.692 36.953 -7.665 1 71.22 ? C4 ANP 801 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #