data_6NYY # _model_server_result.job_id BtHdIOgrkowUUsdImdSSQQ _model_server_result.datetime_utc '2025-03-21 17:47:29' _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 6nyy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":801}' # _entry.id 6NYY # _exptl.entry_id 6NYY _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 506.196 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 3 _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 6NYY _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6NYY _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details decameric _pdbx_struct_assembly.oligomeric_count 10 _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,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W _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 ? 4 L N N ? 4 Q N N ? 4 R 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 306 A HIS 574 1_555 K ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc2 A OD2 ASP 381 A ASP 649 1_555 K ZN ZN . A ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc3 B OG1 THR 87 B THR 355 1_555 M MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc4 B NE2 HIS 306 B HIS 574 1_555 N ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc5 B NE2 HIS 310 B HIS 578 1_555 N ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? metalc ? metalc6 B OD2 ASP 381 B ASP 649 1_555 N ZN ZN . B ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? metalc ? metalc7 L O1G ANP . B ANP 801 1_555 M MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.144 ? metalc ? metalc8 L O3G ANP . B ANP 801 1_555 M MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc9 L O1B ANP . B ANP 801 1_555 M MG MG . B MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc10 C OG1 THR 87 C THR 355 1_555 O MG MG . C MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc11 C NE2 HIS 306 C HIS 574 1_555 P ZN ZN . C ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc12 C NE2 HIS 310 C HIS 578 1_555 P ZN ZN . C ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? metalc ? metalc13 C OD2 ASP 381 C ASP 649 1_555 P ZN ZN . C ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc14 O MG MG . C MG 801 1_555 Q O1B ANP . C ANP 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc15 O MG MG . C MG 801 1_555 Q O3G ANP . C ANP 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc16 P ZN ZN . C ZN 802 1_555 I O ALA 5 I ALA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc17 D OG1 THR 87 D THR 355 1_555 S MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc18 D NE2 HIS 306 D HIS 574 1_555 T ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc19 D NE2 HIS 310 D HIS 578 1_555 T ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? metalc ? metalc20 D OD2 ASP 381 D ASP 649 1_555 T ZN ZN . D ZN 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc21 R O3G ANP . D ANP 801 1_555 S MG MG . D MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc22 T ZN ZN . D ZN 803 1_555 J O ALA 5 J ALA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc23 E NE2 HIS 306 E HIS 574 1_555 V ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc24 E OD2 ASP 381 E ASP 649 1_555 V ZN ZN . E ZN 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc25 F NE2 HIS 306 F HIS 574 1_555 W ZN ZN . F ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc26 F NE2 HIS 310 F HIS 578 1_555 W ZN ZN . F ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc27 F OD2 ASP 381 F ASP 649 1_555 W ZN ZN . F ZN 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? # _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 57 n n PG O2G ANP sing 58 n n PG O3G ANP sing 59 n n PG N3B ANP sing 60 n n O2G HOG2 ANP sing 61 n n O3G HOG3 ANP sing 62 n n PB O1B ANP doub 63 n n PB O2B ANP sing 64 n n PB N3B ANP sing 65 n n PB O3A ANP sing 66 n n O2B HOB2 ANP sing 67 n n N3B HNB1 ANP sing 68 n n PA O1A ANP doub 69 n n PA O2A ANP sing 70 n n PA O3A ANP sing 71 n n PA O5' ANP sing 72 n n O2A HOA2 ANP sing 73 n n O5' C5' ANP sing 74 n n C5' C4' ANP sing 75 n n C5' "H5'1" ANP sing 76 n n C5' "H5'2" ANP sing 77 n n C4' O4' ANP sing 78 n n C4' C3' ANP sing 79 n n C4' H4' ANP sing 80 n n O4' C1' ANP sing 81 n n C3' O3' ANP sing 82 n n C3' C2' ANP sing 83 n n C3' H3' ANP sing 84 n n O3' HO3' ANP sing 85 n n C2' O2' ANP sing 86 n n C2' C1' ANP sing 87 n n C2' H2' ANP sing 88 n n O2' HO2' ANP sing 89 n n C1' N9 ANP sing 90 n n C1' H1' ANP sing 91 n n N9 C8 ANP sing 92 n y N9 C4 ANP sing 93 n y C8 N7 ANP doub 94 n y C8 H8 ANP sing 95 n n N7 C5 ANP sing 96 n y C5 C6 ANP sing 97 n y C5 C4 ANP doub 98 n y C6 N6 ANP sing 99 n n C6 N1 ANP doub 100 n y N6 HN61 ANP sing 101 n n N6 HN62 ANP sing 102 n n N1 C2 ANP sing 103 n y C2 N3 ANP doub 104 n y C2 H2 ANP sing 105 n n N3 C4 ANP sing 106 n y # _atom_sites.entry_id 6NYY _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 K 3 ZN A 1 801 1 ZN ZN . L 4 ANP B 1 801 1 ANP ANP . M 5 MG B 1 802 3 MG MG . N 3 ZN B 1 803 2 ZN ZN . O 5 MG C 1 801 1 MG MG . P 3 ZN C 1 802 3 ZN ZN . Q 4 ANP C 1 803 2 ANP ANP . R 4 ANP D 1 801 3 ANP ANP . S 5 MG D 1 802 2 MG MG . T 3 ZN D 1 803 4 ZN ZN . U 6 ADP E 1 801 4 ADP ADP . V 3 ZN E 1 802 5 ZN ZN . W 3 ZN F 1 801 6 ZN ZN . # 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 . . . R 4 84.303 98.744 81.846 1 78 ? PG ANP 801 D 1 HETATM 2 O O1G ANP . . . R 4 85.303 97.649 81.719 1 78 ? O1G ANP 801 D 1 HETATM 3 O O2G ANP . . . R 4 82.917 98.248 81.297 1 78 ? O2G ANP 801 D 1 HETATM 4 O O3G ANP . . . R 4 84.159 99.17 83.357 1 78 ? O3G ANP 801 D 1 HETATM 5 P PB ANP . . . R 4 84.996 101.391 81.927 1 78 ? PB ANP 801 D 1 HETATM 6 O O1B ANP . . . R 4 83.859 101.408 82.88 1 78 ? O1B ANP 801 D 1 HETATM 7 O O2B ANP . . . R 4 85.03 102.677 81.06 1 78 ? O2B ANP 801 D 1 HETATM 8 N N3B ANP . . . R 4 84.828 100.058 80.939 1 78 ? N3B ANP 801 D 1 HETATM 9 P PA ANP . . . R 4 86.347 102.324 83.994 1 78 ? PA ANP 801 D 1 HETATM 10 O O1A ANP . . . R 4 86.588 101.57 85.237 1 78 ? O1A ANP 801 D 1 HETATM 11 O O2A ANP . . . R 4 85.034 103.102 83.932 1 78 ? O2A ANP 801 D 1 HETATM 12 O O3A ANP . . . R 4 86.303 101.359 82.755 1 78 ? O3A ANP 801 D 1 HETATM 13 O O5' ANP . . . R 4 87.581 103.263 83.778 1 78 ? O5' ANP 801 D 1 HETATM 14 C C5' ANP . . . R 4 88.893 102.697 83.848 1 78 ? C5' ANP 801 D 1 HETATM 15 C C4' ANP . . . R 4 89.893 103.805 84.018 1 78 ? C4' ANP 801 D 1 HETATM 16 O O4' ANP . . . R 4 89.916 104.614 82.83 1 78 ? O4' ANP 801 D 1 HETATM 17 C C3' ANP . . . R 4 89.581 104.78 85.14 1 78 ? C3' ANP 801 D 1 HETATM 18 O O3' ANP . . . R 4 90.104 104.305 86.373 1 78 ? O3' ANP 801 D 1 HETATM 19 C C2' ANP . . . R 4 90.308 106.043 84.69 1 78 ? C2' ANP 801 D 1 HETATM 20 O O2' ANP . . . R 4 91.66 106.021 85.121 1 78 ? O2' ANP 801 D 1 HETATM 21 C C1' ANP . . . R 4 90.244 105.949 83.162 1 78 ? C1' ANP 801 D 1 HETATM 22 N N9 ANP . . . R 4 89.254 106.81 82.531 1 78 ? N9 ANP 801 D 1 HETATM 23 C C8 ANP . . . R 4 88.256 106.383 81.7 1 78 ? C8 ANP 801 D 1 HETATM 24 N N7 ANP . . . R 4 87.497 107.346 81.241 1 78 ? N7 ANP 801 D 1 HETATM 25 C C5 ANP . . . R 4 88.033 108.488 81.807 1 78 ? C5 ANP 801 D 1 HETATM 26 C C6 ANP . . . R 4 87.681 109.843 81.714 1 78 ? C6 ANP 801 D 1 HETATM 27 N N6 ANP . . . R 4 86.657 110.292 80.987 1 78 ? N6 ANP 801 D 1 HETATM 28 N N1 ANP . . . R 4 88.427 110.735 82.402 1 78 ? N1 ANP 801 D 1 HETATM 29 C C2 ANP . . . R 4 89.454 110.288 83.129 1 78 ? C2 ANP 801 D 1 HETATM 30 N N3 ANP . . . R 4 89.88 109.034 83.291 1 78 ? N3 ANP 801 D 1 HETATM 31 C C4 ANP . . . R 4 89.122 108.174 82.602 1 78 ? C4 ANP 801 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 224 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #