data_4FI3 # _model_server_result.job_id '_dfDf08-82vw5-kDYT0x2w' _model_server_result.datetime_utc '2025-07-30 16:20:00' _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 4fi3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 4FI3 # _exptl.entry_id 4FI3 _exptl.method 'X-RAY DIFFRACTION' # _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 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 4FI3 _cell.length_a 127.73 _cell.length_b 211.99 _cell.length_c 179.1 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4FI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,H,I _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 F N N ? 4 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 disulf ? disulf1 C SG CYS 162 C CYS 162 1_555 D SG CYS 162 D CYS 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 E SG CYS 163 F CYS 183 1_555 E SG CYS 239 F CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 C OG SER 40 C SER 40 1_555 G MG MG . C MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc2 F O2B ANP . C ANP 301 1_555 G MG MG . C MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? metalc ? metalc3 F O3G ANP . C ANP 301 1_555 G MG MG . C MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? metalc ? metalc4 D OG SER 40 D SER 40 1_555 I MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? metalc ? metalc5 H O2B ANP . D ANP 301 1_555 I MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc6 H O3G ANP . D ANP 301 1_555 I MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.695 ? # _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 4FI3 _atom_sites.fract_transf_matrix[1][1] 0.007829 _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] 0.004717 _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] 0.005583 _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 F 4 ANP C 1 301 1 ANP ANP . G 5 MG C 1 302 1 MG MG . H 4 ANP D 1 301 1 ANP ANP . I 5 MG D 1 302 1 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 . . . F 4 6.772 11.747 12.379 1 104.35 ? PG ANP 301 C 1 HETATM 2 O O1G ANP . . . F 4 6.003 10.731 13.195 1 101.81 ? O1G ANP 301 C 1 HETATM 3 O O2G ANP . . . F 4 8.262 11.758 12.582 1 106.29 ? O2G ANP 301 C 1 HETATM 4 O O3G ANP . . . F 4 6.265 13.15 12.253 1 106.08 ? O3G ANP 301 C 1 HETATM 5 P PB ANP . . . F 4 4.999 11.183 10.008 1 106.09 ? PB ANP 301 C 1 HETATM 6 O O1B ANP . . . F 4 4.484 9.768 9.866 1 104.43 ? O1B ANP 301 C 1 HETATM 7 O O2B ANP . . . F 4 4.099 12.152 10.692 1 104.67 ? O2B ANP 301 C 1 HETATM 8 N N3B ANP . . . F 4 6.546 11.03 10.802 1 105.99 ? N3B ANP 301 C 1 HETATM 9 P PA ANP . . . F 4 4.701 13.053 7.897 1 112.61 ? PA ANP 301 C 1 HETATM 10 O O1A ANP . . . F 4 3.259 12.757 7.598 1 111.03 ? O1A ANP 301 C 1 HETATM 11 O O2A ANP . . . F 4 5.074 14.177 8.823 1 113.05 ? O2A ANP 301 C 1 HETATM 12 O O3A ANP . . . F 4 5.329 11.723 8.522 1 109.83 ? O3A ANP 301 C 1 HETATM 13 O O5' ANP . . . F 4 5.441 13.183 6.473 1 116.61 ? O5' ANP 301 C 1 HETATM 14 C C5' ANP . . . F 4 5.89 12.006 5.794 1 116.72 ? C5' ANP 301 C 1 HETATM 15 C C4' ANP . . . F 4 6.826 12.317 4.638 1 120.52 ? C4' ANP 301 C 1 HETATM 16 O O4' ANP . . . F 4 6.504 13.57 4.068 1 123.46 ? O4' ANP 301 C 1 HETATM 17 C C3' ANP . . . F 4 8.254 12.413 5.117 1 120.88 ? C3' ANP 301 C 1 HETATM 18 O O3' ANP . . . F 4 9.07 11.577 4.311 1 121.46 ? O3' ANP 301 C 1 HETATM 19 C C2' ANP . . . F 4 8.695 13.826 4.866 1 124.05 ? C2' ANP 301 C 1 HETATM 20 O O2' ANP . . . F 4 10.023 13.84 4.346 1 126.56 ? O2' ANP 301 C 1 HETATM 21 C C1' ANP . . . F 4 7.698 14.3 3.842 1 126.38 ? C1' ANP 301 C 1 HETATM 22 N N9 ANP . . . F 4 7.456 15.751 3.977 1 129.21 ? N9 ANP 301 C 1 HETATM 23 C C8 ANP . . . F 4 7.053 16.444 5.064 1 127.17 ? C8 ANP 301 C 1 HETATM 24 N N7 ANP . . . F 4 6.941 17.773 4.797 1 130.2 ? N7 ANP 301 C 1 HETATM 25 C C5 ANP . . . F 4 7.286 17.931 3.51 1 134.19 ? C5 ANP 301 C 1 HETATM 26 C C6 ANP . . . F 4 7.397 19.062 2.566 1 139.22 ? C6 ANP 301 C 1 HETATM 27 N N6 ANP . . . F 4 7.111 20.332 2.947 1 141.33 ? N6 ANP 301 C 1 HETATM 28 N N1 ANP . . . F 4 7.797 18.776 1.302 1 142.2 ? N1 ANP 301 C 1 HETATM 29 C C2 ANP . . . F 4 8.091 17.521 0.901 1 141.07 ? C2 ANP 301 C 1 HETATM 30 N N3 ANP . . . F 4 8.013 16.451 1.702 1 136.71 ? N3 ANP 301 C 1 HETATM 31 C C4 ANP . . . F 4 7.628 16.6 2.985 1 133.31 ? C4 ANP 301 C 1 # _model_server_stats.io_time_ms 141 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #