data_9BA7 # _model_server_result.job_id lO1kpu6QokCKwDKCLaOWSg _model_server_result.datetime_utc '2025-02-17 20:20:40' _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 9ba7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 9BA7 # _exptl.entry_id 9BA7 _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 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 90 _cell.entry_id 9BA7 _cell.length_a 202.466 _cell.length_b 50.093 _cell.length_c 62.249 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9BA7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_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,O 1 1 B,J,K,L,M,N,P 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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 9BA7 _atom_sites.fract_transf_matrix[1][1] 0.004939 _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] 0.019963 _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] 0.016065 _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 1 301 276 GDP GDP . D 3 SO4 A 1 302 2 SO4 SO4 . E 3 SO4 A 1 303 3 SO4 SO4 . F 3 SO4 A 1 304 5 SO4 SO4 . G 3 SO4 A 1 305 6 SO4 SO4 . H 4 CL A 1 306 1 CL CL . I 4 CL A 1 307 4 CL CL . J 3 SO4 B 1 301 1 SO4 SO4 . K 3 SO4 B 1 302 4 SO4 SO4 . L 4 CL B 1 303 2 CL CL . M 4 CL B 1 304 3 CL CL . N 4 CL B 1 305 5 CL CL . O 5 HOH A 1 401 9 HOH HOH . O 5 HOH A 2 402 7 HOH HOH . O 5 HOH A 3 403 8 HOH HOH . O 5 HOH A 4 404 1 HOH HOH . O 5 HOH A 5 405 14 HOH HOH . O 5 HOH A 6 406 6 HOH HOH . O 5 HOH A 7 407 13 HOH HOH . O 5 HOH A 8 408 2 HOH HOH . P 5 HOH B 1 401 4 HOH HOH . P 5 HOH B 2 402 12 HOH HOH . P 5 HOH B 3 403 10 HOH HOH . P 5 HOH B 4 404 3 HOH HOH . P 5 HOH B 5 405 11 HOH HOH . P 5 HOH B 6 406 5 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 57.674 15.861 10.603 1 81.2 ? PB GDP 301 A 1 HETATM 2 O O1B GDP . . . C 2 56.859 15.786 9.318 1 86.06 ? O1B GDP 301 A 1 HETATM 3 O O2B GDP . . . C 2 56.94 16.805 11.533 1 90.49 ? O2B GDP 301 A 1 HETATM 4 O O3B GDP . . . C 2 57.807 14.501 11.232 1 75.12 ? O3B GDP 301 A 1 HETATM 5 O O3A GDP . . . C 2 59.153 16.45 10.418 1 75.77 ? O3A GDP 301 A 1 HETATM 6 P PA GDP . . . C 2 59.517 17.194 9.046 1 74.07 ? PA GDP 301 A 1 HETATM 7 O O1A GDP . . . C 2 60.255 16.231 8.149 1 80.98 ? O1A GDP 301 A 1 HETATM 8 O O2A GDP . . . C 2 58.265 17.787 8.42 1 73.58 ? O2A GDP 301 A 1 HETATM 9 O O5' GDP . . . C 2 60.529 18.336 9.505 1 74.66 ? O5' GDP 301 A 1 HETATM 10 C C5' GDP . . . C 2 61.556 17.996 10.433 1 81.6 ? C5' GDP 301 A 1 HETATM 11 C C4' GDP . . . C 2 62.45 19.206 10.645 1 81.99 ? C4' GDP 301 A 1 HETATM 12 O O4' GDP . . . C 2 63.717 18.693 11.042 1 86.89 ? O4' GDP 301 A 1 HETATM 13 C C3' GDP . . . C 2 62.648 19.962 9.339 1 84.26 ? C3' GDP 301 A 1 HETATM 14 O O3' GDP . . . C 2 62.876 21.36 9.549 1 94.49 ? O3' GDP 301 A 1 HETATM 15 C C2' GDP . . . C 2 63.895 19.333 8.756 1 89.47 ? C2' GDP 301 A 1 HETATM 16 O O2' GDP . . . C 2 64.621 20.249 7.92 1 93.34 ? O2' GDP 301 A 1 HETATM 17 C C1' GDP . . . C 2 64.666 18.878 9.991 1 85.73 ? C1' GDP 301 A 1 HETATM 18 N N9 GDP . . . C 2 65.305 17.586 9.693 1 86.22 ? N9 GDP 301 A 1 HETATM 19 C C8 GDP . . . C 2 64.716 16.53 9.107 1 83.89 ? C8 GDP 301 A 1 HETATM 20 N N7 GDP . . . C 2 65.586 15.496 8.98 1 81.1 ? N7 GDP 301 A 1 HETATM 21 C C5 GDP . . . C 2 66.76 15.893 9.502 1 90.22 ? C5 GDP 301 A 1 HETATM 22 C C6 GDP . . . C 2 68.109 15.3 9.694 1 93.68 ? C6 GDP 301 A 1 HETATM 23 O O6 GDP . . . C 2 68.375 14.127 9.325 1 84.35 ? O6 GDP 301 A 1 HETATM 24 N N1 GDP . . . C 2 69.035 16.078 10.287 1 97.22 ? N1 GDP 301 A 1 HETATM 25 C C2 GDP . . . C 2 68.786 17.337 10.692 1 85.33 ? C2 GDP 301 A 1 HETATM 26 N N2 GDP . . . C 2 69.779 18.037 11.278 1 104.41 ? N2 GDP 301 A 1 HETATM 27 N N3 GDP . . . C 2 67.587 17.94 10.548 1 80.14 ? N3 GDP 301 A 1 HETATM 28 C C4 GDP . . . C 2 66.562 17.276 9.974 1 88.26 ? C4 GDP 301 A 1 # _model_server_stats.io_time_ms 98 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 28 #