data_4UPA # _model_server_result.job_id kM4xQU-OUMUN0OM3q6EVtQ _model_server_result.datetime_utc '2024-12-27 00:46:13' _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 4upa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1584}' # _entry.id 4UPA # _exptl.entry_id 4UPA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 1 _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 4UPA _cell.length_a 156.82 _cell.length_b 156.82 _cell.length_c 94.132 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4UPA _symmetry.cell_setting ? _symmetry.Int_Tables_number 171 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 62' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_875 -x+3,-y+2,z -1 0 0 0 -1 0 0 0 1 313.64 271.620208 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 4UPA _atom_sites.fract_transf_matrix[1][1] 0.006377 _atom_sites.fract_transf_matrix[1][2] 0.003682 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007363 _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] 0.010623 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id ANP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1584 _pdbx_nonpoly_scheme.auth_seq_num 1584 _pdbx_nonpoly_scheme.pdb_mon_id ANP _pdbx_nonpoly_scheme.auth_mon_id ANP _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . B 2 135.951 133.933 24.275 1 157.93 ? PG ANP 1584 A 1 HETATM 2 O O1G ANP . . . B 2 135.129 134.327 22.979 1 102.39 ? O1G ANP 1584 A 1 HETATM 3 O O2G ANP . . . B 2 137.481 133.823 23.905 1 133.22 ? O2G ANP 1584 A 1 HETATM 4 O O3G ANP . . . B 2 135.458 132.607 24.767 1 149.54 ? O3G ANP 1584 A 1 HETATM 5 P PB ANP . . . B 2 137.019 136.166 25.649 1 202.69 ? PB ANP 1584 A 1 HETATM 6 O O1B ANP . . . B 2 136.628 137.252 26.599 1 200.73 ? O1B ANP 1584 A 1 HETATM 7 O O2B ANP . . . B 2 138.277 135.434 26.208 1 165.29 ? O2B ANP 1584 A 1 HETATM 8 N N3B ANP . . . B 2 135.737 135.078 25.515 1 159.04 ? N3B ANP 1584 A 1 HETATM 9 P PA ANP . . . B 2 137.927 138.281 24.099 1 146.19 ? PA ANP 1584 A 1 HETATM 10 O O1A ANP . . . B 2 136.741 139.254 24.053 1 141.3 ? O1A ANP 1584 A 1 HETATM 11 O O2A ANP . . . B 2 138.88 138.588 25.189 1 153.28 ? O2A ANP 1584 A 1 HETATM 12 O O3A ANP . . . B 2 137.327 136.799 24.247 1 159.28 ? O3A ANP 1584 A 1 HETATM 13 O O5' ANP . . . B 2 138.75 138.285 22.737 1 116.11 ? O5' ANP 1584 A 1 HETATM 14 C C5' ANP . . . B 2 139.854 137.373 22.613 1 120.29 ? C5' ANP 1584 A 1 HETATM 15 C C4' ANP . . . B 2 140.382 137.263 21.202 1 120.96 ? C4' ANP 1584 A 1 HETATM 16 O O4' ANP . . . B 2 141.688 136.656 21.23 1 109.22 ? O4' ANP 1584 A 1 HETATM 17 C C3' ANP . . . B 2 139.571 136.372 20.27 1 124.26 ? C3' ANP 1584 A 1 HETATM 18 O O3' ANP . . . B 2 139.747 136.743 18.905 1 123.93 ? O3' ANP 1584 A 1 HETATM 19 C C2' ANP . . . B 2 140.14 134.974 20.547 1 121.72 ? C2' ANP 1584 A 1 HETATM 20 O O2' ANP . . . B 2 140.211 134.259 19.318 1 132.71 ? O2' ANP 1584 A 1 HETATM 21 C C1' ANP . . . B 2 141.554 135.254 21.08 1 101.33 ? C1' ANP 1584 A 1 HETATM 22 N N9 ANP . . . B 2 141.88 134.613 22.369 1 85.15 ? N9 ANP 1584 A 1 HETATM 23 C C8 ANP . . . B 2 141.772 135.168 23.606 1 73.56 ? C8 ANP 1584 A 1 HETATM 24 N N7 ANP . . . B 2 142.149 134.375 24.595 1 74.17 ? N7 ANP 1584 A 1 HETATM 25 C C5 ANP . . . B 2 142.549 133.225 23.92 1 81.75 ? C5 ANP 1584 A 1 HETATM 26 C C6 ANP . . . B 2 143.07 131.999 24.401 1 80.35 ? C6 ANP 1584 A 1 HETATM 27 N N6 ANP . . . B 2 143.28 131.724 25.686 1 75.13 ? N6 ANP 1584 A 1 HETATM 28 N N1 ANP . . . B 2 143.37 131.055 23.476 1 84.33 ? N1 ANP 1584 A 1 HETATM 29 C C2 ANP . . . B 2 143.162 131.324 22.185 1 84 ? C2 ANP 1584 A 1 HETATM 30 N N3 ANP . . . B 2 142.683 132.439 21.626 1 80.16 ? N3 ANP 1584 A 1 HETATM 31 C C4 ANP . . . B 2 142.394 133.353 22.554 1 84.7 ? C4 ANP 1584 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #