data_1PLL # _model_server_result.job_id Dx2U2vGP3-2FMQ4lnYMWMg _model_server_result.datetime_utc '2024-11-22 09:55:05' _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 1pll # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":167}' # _entry.id 1PLL # _exptl.entry_id 1PLL _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 120 _cell.entry_id 1PLL _cell.length_a 39.9 _cell.length_b 39.9 _cell.length_c 158.4 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PLL _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 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 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 1PLL _atom_sites.fract_transf_matrix[1][1] 0.025063 _atom_sites.fract_transf_matrix[1][2] 0.01447 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02894 _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] 0.006313 _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 GDP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 167 _pdbx_nonpoly_scheme.auth_seq_num 167 _pdbx_nonpoly_scheme.pdb_mon_id GDP _pdbx_nonpoly_scheme.auth_mon_id GDP _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 PB GDP . . . B 2 6.514 30.911 20.455 1 20 ? PB GDP 167 A 1 HETATM 2 O O1B GDP . . . B 2 6.916 29.467 20.282 1 20 ? O1B GDP 167 A 1 HETATM 3 O O2B GDP . . . B 2 5.211 31.332 19.873 1 20 ? O2B GDP 167 A 1 HETATM 4 O O3B GDP . . . B 2 6.463 30.975 22.024 1 20 ? O3B GDP 167 A 1 HETATM 5 O O3A GDP . . . B 2 7.739 32.031 19.915 1 20 ? O3A GDP 167 A 1 HETATM 6 P PA GDP . . . B 2 8.527 33.493 20.431 1 20 ? PA GDP 167 A 1 HETATM 7 O O1A GDP . . . B 2 8.733 34.424 19.298 1 20 ? O1A GDP 167 A 1 HETATM 8 O O2A GDP . . . B 2 7.912 34.084 21.63 1 20 ? O2A GDP 167 A 1 HETATM 9 O O5' GDP . . . B 2 9.996 33.022 20.87 1 20 ? O5' GDP 167 A 1 HETATM 10 C C5' GDP . . . B 2 11.026 33.731 21.599 1 20 ? C5' GDP 167 A 1 HETATM 11 C C4' GDP . . . B 2 12.241 34.225 20.766 1 20 ? C4' GDP 167 A 1 HETATM 12 O O4' GDP . . . B 2 12.761 33.639 19.536 1 20 ? O4' GDP 167 A 1 HETATM 13 C C3' GDP . . . B 2 12.513 35.714 20.662 1 20 ? C3' GDP 167 A 1 HETATM 14 O O3' GDP . . . B 2 13.44 35.973 21.724 1 20 ? O3' GDP 167 A 1 HETATM 15 C C2' GDP . . . B 2 13.27 35.912 19.317 1 20 ? C2' GDP 167 A 1 HETATM 16 O O2' GDP . . . B 2 14.109 37.102 19.429 1 20 ? O2' GDP 167 A 1 HETATM 17 C C1' GDP . . . B 2 13.885 34.473 19.131 1 20 ? C1' GDP 167 A 1 HETATM 18 N N9 GDP . . . B 2 14.399 34.007 17.788 1 20 ? N9 GDP 167 A 1 HETATM 19 C C8 GDP . . . B 2 13.693 33.631 16.645 1 20 ? C8 GDP 167 A 1 HETATM 20 N N7 GDP . . . B 2 14.324 32.875 15.772 1 20 ? N7 GDP 167 A 1 HETATM 21 C C5 GDP . . . B 2 15.552 32.691 16.381 1 20 ? C5 GDP 167 A 1 HETATM 22 C C6 GDP . . . B 2 16.66 31.934 15.962 1 20 ? C6 GDP 167 A 1 HETATM 23 O O6 GDP . . . B 2 16.791 31.287 14.934 1 20 ? O6 GDP 167 A 1 HETATM 24 N N1 GDP . . . B 2 17.742 31.986 16.823 1 20 ? N1 GDP 167 A 1 HETATM 25 C C2 GDP . . . B 2 17.754 32.656 18.024 1 20 ? C2 GDP 167 A 1 HETATM 26 N N2 GDP . . . B 2 18.893 32.562 18.735 1 20 ? N2 GDP 167 A 1 HETATM 27 N N3 GDP . . . B 2 16.686 33.381 18.439 1 20 ? N3 GDP 167 A 1 HETATM 28 C C4 GDP . . . B 2 15.621 33.351 17.589 1 20 ? C4 GDP 167 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #