data_3IEU # _model_server_result.job_id bPgmjCuQ5-vG56Nk2ow3Fw _model_server_result.datetime_utc '2025-04-26 13:42:43' _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 3ieu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 3IEU # _exptl.entry_id 3IEU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 443.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-DIPHOSPHATE" _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 114.2 _cell.angle_gamma 90 _cell.entry_id 3IEU _cell.length_a 86.6 _cell.length_b 67.9 _cell.length_c 87.1 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IEU _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,F,G,H,I,S 1 1 B,J,K,L,M,N,O,P,Q,R,T 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 ? 2 C N N ? 2 J N N # _chem_comp.formula 'C10 H15 N5 O11 P2' _chem_comp.formula_weight 443.201 _chem_comp.id GDP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-5'-DIPHOSPHATE" _chem_comp.type 'rna linking' _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 PB O1B GDP doub 83 n n PB O2B GDP sing 84 n n PB O3B GDP sing 85 n n PB O3A GDP sing 86 n n O2B HOB2 GDP sing 87 n n O3B HOB3 GDP sing 88 n n O3A PA GDP sing 89 n n PA O1A GDP doub 90 n n PA O2A GDP sing 91 n n PA O5' GDP sing 92 n n O2A HOA2 GDP sing 93 n n O5' C5' GDP sing 94 n n C5' C4' GDP sing 95 n n C5' H5' GDP sing 96 n n C5' "H5''" GDP sing 97 n n C4' O4' GDP sing 98 n n C4' C3' GDP sing 99 n n C4' H4' GDP sing 100 n n O4' C1' GDP sing 101 n n C3' O3' GDP sing 102 n n C3' C2' GDP sing 103 n n C3' H3' GDP sing 104 n n O3' HO3' GDP sing 105 n n C2' O2' GDP sing 106 n n C2' C1' GDP sing 107 n n C2' H2' GDP sing 108 n n O2' HO2' GDP sing 109 n n C1' N9 GDP sing 110 n n C1' H1' GDP sing 111 n n N9 C8 GDP sing 112 n y N9 C4 GDP sing 113 n y C8 N7 GDP doub 114 n y C8 H8 GDP sing 115 n n N7 C5 GDP sing 116 n y C5 C6 GDP sing 117 n n C5 C4 GDP doub 118 n y C6 O6 GDP doub 119 n n C6 N1 GDP sing 120 n n N1 C2 GDP sing 121 n n N1 HN1 GDP sing 122 n n C2 N2 GDP sing 123 n n C2 N3 GDP doub 124 n n N2 HN21 GDP sing 125 n n N2 HN22 GDP sing 126 n n N3 C4 GDP sing 127 n n # _atom_sites.entry_id 3IEU _atom_sites.fract_transf_matrix[1][1] 0.011543 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005176 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014719 _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] 0.012579 _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 C 2 GDP A 1 302 1 GDP GDP . D 3 SO4 A 1 303 1 SO4 SO4 . E 3 SO4 A 1 304 2 SO4 SO4 . F 3 SO4 A 1 305 3 SO4 SO4 . G 3 SO4 A 1 306 9 SO4 SO4 . H 3 SO4 A 1 307 10 SO4 SO4 . I 4 TRS A 1 308 14 TRS TRS . J 2 GDP B 1 302 2 GDP GDP . K 3 SO4 B 1 303 4 SO4 SO4 . L 3 SO4 B 1 304 5 SO4 SO4 . M 3 SO4 B 1 305 6 SO4 SO4 . N 3 SO4 B 1 306 7 SO4 SO4 . O 3 SO4 B 1 307 8 SO4 SO4 . P 3 SO4 B 1 308 11 SO4 SO4 . Q 3 SO4 B 1 309 12 SO4 SO4 . R 3 SO4 B 1 310 13 SO4 SO4 . S 5 HOH A 1 309 1 HOH HOH . S 5 HOH A 2 310 2 HOH HOH . S 5 HOH A 3 311 3 HOH HOH . S 5 HOH A 4 312 4 HOH HOH . S 5 HOH A 5 313 5 HOH HOH . S 5 HOH A 6 314 6 HOH HOH . S 5 HOH A 7 315 7 HOH HOH . S 5 HOH A 8 316 8 HOH HOH . S 5 HOH A 9 317 9 HOH HOH . S 5 HOH A 10 318 10 HOH HOH . S 5 HOH A 11 319 11 HOH HOH . S 5 HOH A 12 320 12 HOH HOH . S 5 HOH A 13 321 13 HOH HOH . S 5 HOH A 14 322 14 HOH HOH . S 5 HOH A 15 323 25 HOH HOH . S 5 HOH A 16 324 27 HOH HOH . S 5 HOH A 17 325 30 HOH HOH . S 5 HOH A 18 326 31 HOH HOH . S 5 HOH A 19 327 34 HOH HOH . S 5 HOH A 20 328 37 HOH HOH . S 5 HOH A 21 329 41 HOH HOH . S 5 HOH A 22 330 42 HOH HOH . T 5 HOH B 1 311 15 HOH HOH . T 5 HOH B 2 312 16 HOH HOH . T 5 HOH B 3 313 17 HOH HOH . T 5 HOH B 4 314 18 HOH HOH . T 5 HOH B 5 315 19 HOH HOH . T 5 HOH B 6 316 20 HOH HOH . T 5 HOH B 7 317 21 HOH HOH . T 5 HOH B 8 318 22 HOH HOH . T 5 HOH B 9 319 23 HOH HOH . T 5 HOH B 10 320 24 HOH HOH . T 5 HOH B 11 321 26 HOH HOH . T 5 HOH B 12 322 28 HOH HOH . T 5 HOH B 13 323 29 HOH HOH . T 5 HOH B 14 324 32 HOH HOH . T 5 HOH B 15 325 33 HOH HOH . T 5 HOH B 16 326 35 HOH HOH . T 5 HOH B 17 327 36 HOH HOH . T 5 HOH B 18 328 38 HOH HOH . T 5 HOH B 19 329 39 HOH HOH . T 5 HOH B 20 330 40 HOH HOH . # 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 PB GDP . . . C 2 20.311 28.831 37.401 1 70.37 ? PB GDP 302 A 1 HETATM 2 O O1B GDP . . . C 2 21.286 28.742 38.562 1 63.56 ? O1B GDP 302 A 1 HETATM 3 O O2B GDP . . . C 2 20.085 30.284 37.012 1 57.46 ? O2B GDP 302 A 1 HETATM 4 O O3B GDP . . . C 2 19.01 28.201 37.841 1 74.27 ? O3B GDP 302 A 1 HETATM 5 O O3A GDP . . . C 2 20.936 28.041 36.165 1 46.56 ? O3A GDP 302 A 1 HETATM 6 P PA GDP . . . C 2 20.483 26.603 35.616 1 62.62 ? PA GDP 302 A 1 HETATM 7 O O1A GDP . . . C 2 19.321 26.8 34.646 1 71.52 ? O1A GDP 302 A 1 HETATM 8 O O2A GDP . . . C 2 20.148 25.675 36.746 1 53.77 ? O2A GDP 302 A 1 HETATM 9 O O5' GDP . . . C 2 21.745 26.089 34.763 1 63.37 ? O5' GDP 302 A 1 HETATM 10 C C5' GDP . . . C 2 22.076 26.924 33.643 1 65.11 ? C5' GDP 302 A 1 HETATM 11 C C4' GDP . . . C 2 22.897 26.201 32.617 1 58.36 ? C4' GDP 302 A 1 HETATM 12 O O4' GDP . . . C 2 23.941 25.546 33.321 1 70.83 ? O4' GDP 302 A 1 HETATM 13 C C3' GDP . . . C 2 22.077 25.113 31.954 1 68.47 ? C3' GDP 302 A 1 HETATM 14 O O3' GDP . . . C 2 22.316 25.126 30.547 1 73.24 ? O3' GDP 302 A 1 HETATM 15 C C2' GDP . . . C 2 22.611 23.824 32.528 1 69.63 ? C2' GDP 302 A 1 HETATM 16 O O2' GDP . . . C 2 22.547 22.714 31.627 1 69.38 ? O2' GDP 302 A 1 HETATM 17 C C1' GDP . . . C 2 24.037 24.2 32.86 1 74.06 ? C1' GDP 302 A 1 HETATM 18 N N9 GDP . . . C 2 24.513 23.287 33.912 1 80.06 ? N9 GDP 302 A 1 HETATM 19 C C8 GDP . . . C 2 23.913 23.066 35.097 1 75.72 ? C8 GDP 302 A 1 HETATM 20 N N7 GDP . . . C 2 24.612 22.154 35.818 1 76.63 ? N7 GDP 302 A 1 HETATM 21 C C5 GDP . . . C 2 25.674 21.787 35.09 1 79.46 ? C5 GDP 302 A 1 HETATM 22 C C6 GDP . . . C 2 26.805 20.86 35.264 1 87.52 ? C6 GDP 302 A 1 HETATM 23 O O6 GDP . . . C 2 26.924 20.196 36.318 1 84.4 ? O6 GDP 302 A 1 HETATM 24 N N1 GDP . . . C 2 27.688 20.767 34.258 1 94.17 ? N1 GDP 302 A 1 HETATM 25 C C2 GDP . . . C 2 27.574 21.477 33.12 1 90.26 ? C2 GDP 302 A 1 HETATM 26 N N2 GDP . . . C 2 28.516 21.326 32.158 1 99.26 ? N2 GDP 302 A 1 HETATM 27 N N3 GDP . . . C 2 26.558 22.347 32.894 1 86.16 ? N3 GDP 302 A 1 HETATM 28 C C4 GDP . . . C 2 25.603 22.534 33.828 1 83.24 ? C4 GDP 302 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #