data_5WFN # _model_server_result.job_id E0Kj_bubOcL1AhLICxKRXA _model_server_result.datetime_utc '2025-02-24 20:18:43' _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 5wfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 5WFN # _exptl.entry_id 5WFN _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 101.29 _cell.angle_beta 90.94 _cell.angle_gamma 107.97 _cell.entry_id 5WFN _cell.length_a 65.35 _cell.length_b 65.65 _cell.length_c 81.92 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F 1 1 C,D,G,H 2 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 E N N ? 3 G 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 OE1 GLN 138 A GLN 137 1_555 F MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc2 E O2G ANP . A ANP 401 1_555 F MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc3 C OE1 GLN 138 B GLN 137 1_555 H MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? metalc ? metalc4 G O2G ANP . B ANP 401 1_555 H MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? # _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 5WFN _atom_sites.fract_transf_matrix[1][1] 0.015302 _atom_sites.fract_transf_matrix[1][2] 0.004963 _atom_sites.fract_transf_matrix[1][3] 0.001329 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016013 _atom_sites.fract_transf_matrix[2][3] 0.003459 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01249 _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 1 401 401 ANP ANP . F 4 MG A 1 402 402 MG MG . G 3 ANP B 1 401 401 ANP ANP . H 4 MG B 1 402 402 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 -50.996 -56.251 -74.449 1 93.75 ? PG ANP 401 A 1 HETATM 2 O O1G ANP . . . E 3 -52.084 -57.243 -75.04 1 62.95 ? O1G ANP 401 A 1 HETATM 3 O O2G ANP . . . E 3 -49.615 -57.038 -74.43 1 68.98 ? O2G ANP 401 A 1 HETATM 4 O O3G ANP . . . E 3 -51.409 -55.782 -73.074 1 63.1 ? O3G ANP 401 A 1 HETATM 5 P PB ANP . . . E 3 -49.958 -54.961 -76.797 1 91.33 ? PB ANP 401 A 1 HETATM 6 O O1B ANP . . . E 3 -50.473 -53.842 -77.782 1 37.34 ? O1B ANP 401 A 1 HETATM 7 O O2B ANP . . . E 3 -50.082 -56.337 -77.355 1 52.64 ? O2B ANP 401 A 1 HETATM 8 N N3B ANP . . . E 3 -50.893 -54.838 -75.401 1 60.77 ? N3B ANP 401 A 1 HETATM 9 P PA ANP . . . E 3 -47.346 -54.116 -77.336 1 72.24 ? PA ANP 401 A 1 HETATM 10 O O1A ANP . . . E 3 -48.18 -53.443 -78.426 1 103.39 ? O1A ANP 401 A 1 HETATM 11 O O2A ANP . . . E 3 -46.267 -55.032 -77.796 1 54.91 ? O2A ANP 401 A 1 HETATM 12 O O3A ANP . . . E 3 -48.437 -54.838 -76.416 1 109.36 ? O3A ANP 401 A 1 HETATM 13 O O5' ANP . . . E 3 -46.682 -53.044 -76.411 1 47.67 ? O5' ANP 401 A 1 HETATM 14 C C5' ANP . . . E 3 -46.645 -51.663 -76.838 1 68.98 ? C5' ANP 401 A 1 HETATM 15 C C4' ANP . . . E 3 -46.184 -50.815 -75.682 1 62.07 ? C4' ANP 401 A 1 HETATM 16 O O4' ANP . . . E 3 -44.743 -50.724 -75.717 1 66.51 ? O4' ANP 401 A 1 HETATM 17 C C3' ANP . . . E 3 -46.702 -49.376 -75.658 1 65.25 ? C3' ANP 401 A 1 HETATM 18 O O3' ANP . . . E 3 -47.019 -48.97 -74.326 1 73.75 ? O3' ANP 401 A 1 HETATM 19 C C2' ANP . . . E 3 -45.529 -48.579 -76.243 1 62.43 ? C2' ANP 401 A 1 HETATM 20 O O2' ANP . . . E 3 -45.47 -47.228 -75.785 1 73.81 ? O2' ANP 401 A 1 HETATM 21 C C1' ANP . . . E 3 -44.348 -49.367 -75.687 1 75.45 ? C1' ANP 401 A 1 HETATM 22 N N9 ANP . . . E 3 -43.108 -49.22 -76.443 1 70.04 ? N9 ANP 401 A 1 HETATM 23 C C8 ANP . . . E 3 -42.926 -49.431 -77.783 1 62.15 ? C8 ANP 401 A 1 HETATM 24 N N7 ANP . . . E 3 -41.696 -49.229 -78.197 1 60.15 ? N7 ANP 401 A 1 HETATM 25 C C5 ANP . . . E 3 -41.019 -48.865 -77.042 1 72.33 ? C5 ANP 401 A 1 HETATM 26 C C6 ANP . . . E 3 -39.672 -48.517 -76.799 1 65.57 ? C6 ANP 401 A 1 HETATM 27 N N6 ANP . . . E 3 -38.733 -48.469 -77.748 1 84.05 ? N6 ANP 401 A 1 HETATM 28 N N1 ANP . . . E 3 -39.322 -48.214 -75.529 1 64.02 ? N1 ANP 401 A 1 HETATM 29 C C2 ANP . . . E 3 -40.262 -48.237 -74.578 1 44.19 ? C2 ANP 401 A 1 HETATM 30 N N3 ANP . . . E 3 -41.554 -48.554 -74.685 1 51.24 ? N3 ANP 401 A 1 HETATM 31 C C4 ANP . . . E 3 -41.873 -48.856 -75.952 1 78.56 ? C4 ANP 401 A 1 HETATM 32 H HNB1 ANP . . . E 3 -51.728 -54.559 -75.62 1 73.05 ? HNB1 ANP 401 A 1 HETATM 33 H "H5'1" ANP . . . E 3 -47.533 -51.384 -77.119 1 83.23 ? "H5'1" ANP 401 A 1 HETATM 34 H "H5'2" ANP . . . E 3 -46.019 -51.568 -77.586 1 83.23 ? "H5'2" ANP 401 A 1 HETATM 35 H H4' ANP . . . E 3 -46.419 -51.242 -74.834 1 74.95 ? H4' ANP 401 A 1 HETATM 36 H H3' ANP . . . E 3 -47.466 -49.307 -76.235 1 78.68 ? H3' ANP 401 A 1 HETATM 37 H H2' ANP . . . E 3 -45.524 -48.637 -77.207 1 75.38 ? H2' ANP 401 A 1 HETATM 38 H HO2' ANP . . . E 3 -45.21 -46.7 -76.45 1 89 ? HO2' ANP 401 A 1 HETATM 39 H H1' ANP . . . E 3 -44.212 -49.089 -74.768 1 91.12 ? H1' ANP 401 A 1 HETATM 40 H H8 ANP . . . E 3 -43.634 -49.695 -78.369 1 75.31 ? H8 ANP 401 A 1 HETATM 41 H HN61 ANP . . . E 3 -38.234 -47.7 -77.866 1 101.91 ? HN61 ANP 401 A 1 HETATM 42 H HN62 ANP . . . E 3 -38.584 -49.196 -78.281 1 101.91 ? HN62 ANP 401 A 1 HETATM 43 H H2 ANP . . . E 3 -39.958 -48.011 -73.684 1 53.92 ? H2 ANP 401 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #