data_8OXM # _model_server_result.job_id Zw1AD-IGt-1hWsumWuPTyQ _model_server_result.datetime_utc '2024-11-28 01:17:45' _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 8oxm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":3101}' # _entry.id 8OXM # _exptl.entry_id 8OXM _exptl.method 'ELECTRON MICROSCOPY' # _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 8OXM _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OXM _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 3 E N N ? 3 H 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 B NE2 HIS 2004 A HIS 1876 1_555 G ZN ZN . A ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc2 B SG CYS 2027 A CYS 1899 1_555 G ZN ZN . A ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc3 B SG CYS 2028 A CYS 1900 1_555 G ZN ZN . A ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc4 B OD1 ASN 3003 A ASN 2875 1_555 F MG MG . A MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.869 ? metalc ? metalc5 B OD1 ASP 3017 A ASP 2889 1_555 F MG MG . A MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.65 ? metalc ? metalc6 B OD2 ASP 3017 A ASP 2889 1_555 F MG MG . A MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc7 E O1A ANP . A ANP 3101 1_555 F MG MG . A MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc8 D NE2 HIS 2004 B HIS 1876 1_555 J ZN ZN . B ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc9 D SG CYS 2027 B CYS 1899 1_555 J ZN ZN . B ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? metalc ? metalc10 D SG CYS 2028 B CYS 1900 1_555 J ZN ZN . B ZN 3103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc11 D OD1 ASN 3003 B ASN 2875 1_555 I MG MG . B MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.903 ? metalc ? metalc12 D OD1 ASP 3017 B ASP 2889 1_555 I MG MG . B MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.929 ? metalc ? metalc13 D OD2 ASP 3017 B ASP 2889 1_555 I MG MG . B MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc14 H O1A ANP . B ANP 3101 1_555 I MG MG . B MG 3102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? # _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 8OXM _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 E 3 ANP A 1 3101 3101 ANP ANP . F 4 MG A 1 3102 3103 MG MG . G 5 ZN A 1 3103 3104 ZN ZN . H 3 ANP B 1 3101 3101 ANP ANP . I 4 MG B 1 3102 3103 MG MG . J 5 ZN B 1 3103 3104 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 . . . E 3 178.62 204.358 103.491 1 142.39 ? PG ANP 3101 A 1 HETATM 2 O O1G ANP . . . E 3 178.074 202.974 103.343 1 129.74 ? O1G ANP 3101 A 1 HETATM 3 O O2G ANP . . . E 3 179.902 204.321 104.407 1 132.05 ? O2G ANP 3101 A 1 HETATM 4 O O3G ANP . . . E 3 179.007 204.93 102.067 1 128.7 ? O3G ANP 3101 A 1 HETATM 5 P PB ANP . . . E 3 176.369 205.883 103.03 1 129.31 ? PB ANP 3101 A 1 HETATM 6 O O1B ANP . . . E 3 176.342 204.911 101.895 1 125.56 ? O1B ANP 3101 A 1 HETATM 7 O O2B ANP . . . E 3 176.806 207.282 102.504 1 125.79 ? O2B ANP 3101 A 1 HETATM 8 N N3B ANP . . . E 3 177.45 205.356 104.198 1 127.67 ? N3B ANP 3101 A 1 HETATM 9 P PA ANP . . . E 3 174.783 206.434 105.17 1 122.33 ? PA ANP 3101 A 1 HETATM 10 O O1A ANP . . . E 3 175.599 205.59 106.071 1 123.37 ? O1A ANP 3101 A 1 HETATM 11 O O2A ANP . . . E 3 173.282 206.401 105.469 1 124.41 ? O2A ANP 3101 A 1 HETATM 12 O O3A ANP . . . E 3 174.946 205.983 103.656 1 123.27 ? O3A ANP 3101 A 1 HETATM 13 O O5' ANP . . . E 3 175.358 207.908 105.239 1 125.25 ? O5' ANP 3101 A 1 HETATM 14 C C5' ANP . . . E 3 176.646 208.174 105.83 1 125.2 ? C5' ANP 3101 A 1 HETATM 15 C C4' ANP . . . E 3 176.48 209.173 106.947 1 126.11 ? C4' ANP 3101 A 1 HETATM 16 O O4' ANP . . . E 3 175.099 209.198 107.377 1 120.52 ? O4' ANP 3101 A 1 HETATM 17 C C3' ANP . . . E 3 177.318 208.896 108.197 1 125.85 ? C3' ANP 3101 A 1 HETATM 18 O O3' ANP . . . E 3 177.868 210.101 108.718 1 131.96 ? O3' ANP 3101 A 1 HETATM 19 C C2' ANP . . . E 3 176.307 208.268 109.159 1 122.95 ? C2' ANP 3101 A 1 HETATM 20 O O2' ANP . . . E 3 176.643 208.517 110.519 1 125.85 ? O2' ANP 3101 A 1 HETATM 21 C C1' ANP . . . E 3 175.032 209.011 108.775 1 122.96 ? C1' ANP 3101 A 1 HETATM 22 N N9 ANP . . . E 3 173.802 208.289 109.088 1 121.69 ? N9 ANP 3101 A 1 HETATM 23 C C8 ANP . . . E 3 173.222 207.288 108.355 1 120.43 ? C8 ANP 3101 A 1 HETATM 24 N N7 ANP . . . E 3 172.114 206.819 108.877 1 121.19 ? N7 ANP 3101 A 1 HETATM 25 C C5 ANP . . . E 3 171.954 207.564 110.035 1 124.32 ? C5 ANP 3101 A 1 HETATM 26 C C6 ANP . . . E 3 170.969 207.555 111.041 1 123.54 ? C6 ANP 3101 A 1 HETATM 27 N N6 ANP . . . E 3 169.915 206.735 111.041 1 126.42 ? N6 ANP 3101 A 1 HETATM 28 N N1 ANP . . . E 3 171.107 208.429 112.063 1 119.64 ? N1 ANP 3101 A 1 HETATM 29 C C2 ANP . . . E 3 172.16 209.251 112.068 1 121.41 ? C2 ANP 3101 A 1 HETATM 30 N N3 ANP . . . E 3 173.15 209.351 111.177 1 123.98 ? N3 ANP 3101 A 1 HETATM 31 C C4 ANP . . . E 3 172.987 208.476 110.178 1 124.45 ? C4 ANP 3101 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 42 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 31 #