data_5FSI # _model_server_result.job_id xCRA2xRQppwu1JvWSNlweg _model_server_result.datetime_utc '2024-11-26 17:21:48' _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 5fsi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1157}' # _entry.id 5FSI # _exptl.entry_id 5FSI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE" _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 5FSI _cell.length_a 60.469 _cell.length_b 66.149 _cell.length_c 36.083 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FSI _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id 8DG _chem_comp.mon_nstd_flag . _chem_comp.name "8-OXO-2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE" _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 8DG doub 1 n n PG O2G 8DG sing 2 n n PG O3G 8DG sing 3 n n PG O3B 8DG sing 4 n n O2G HOG2 8DG sing 5 n n O3G H3G 8DG sing 6 n n O3B PB 8DG sing 7 n n PB O1B 8DG doub 8 n n PB O2B 8DG sing 9 n n PB O3A 8DG sing 10 n n O2B HOB2 8DG sing 11 n n O3A PA 8DG sing 12 n n PA O1A 8DG doub 13 n n PA O2A 8DG sing 14 n n PA O5' 8DG sing 15 n n O2A HOA2 8DG sing 16 n n O5' C5' 8DG sing 17 n n C5' C4' 8DG sing 18 n n C5' "H5'1" 8DG sing 19 n n C5' "H5'2" 8DG sing 20 n n C4' O4' 8DG sing 21 n n C4' C3' 8DG sing 22 n n C4' H4' 8DG sing 23 n n O4' C1' 8DG sing 24 n n C3' O3' 8DG sing 25 n n C3' C2' 8DG sing 26 n n C3' H3' 8DG sing 27 n n O3' H1 8DG sing 28 n n C2' C1' 8DG sing 29 n n C2' "H2'1" 8DG sing 30 n n C2' "H2'2" 8DG sing 31 n n C1' N9 8DG sing 32 n n C1' H1' 8DG sing 33 n n N9 C8 8DG sing 34 n n N9 C4 8DG sing 35 n n C8 N7 8DG sing 36 n n C8 O8 8DG doub 37 n n N7 C5 8DG sing 38 n n N7 HN7 8DG sing 39 n n C5 C6 8DG sing 40 n n C5 C4 8DG doub 41 n n C6 O6 8DG doub 42 n n C6 N1 8DG sing 43 n n N1 C2 8DG sing 44 n n N1 HN1 8DG sing 45 n n C2 N2 8DG sing 46 n n C2 N3 8DG doub 47 n n N2 HN21 8DG sing 48 n n N2 HN22 8DG sing 49 n n N3 C4 8DG sing 50 n n # _atom_sites.entry_id 5FSI _atom_sites.fract_transf_matrix[1][1] 0.016537 _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] 0.015117 _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] 0.027714 _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 B 2 8DG A 1 1157 1157 8DG 8DG . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 HOH HOH . C 3 HOH A 14 2014 2014 HOH HOH . C 3 HOH A 15 2015 2015 HOH HOH . C 3 HOH A 16 2016 2016 HOH HOH . C 3 HOH A 17 2017 2017 HOH HOH . C 3 HOH A 18 2018 2018 HOH HOH . C 3 HOH A 19 2019 2019 HOH HOH . C 3 HOH A 20 2020 2020 HOH HOH . C 3 HOH A 21 2021 2021 HOH HOH . C 3 HOH A 22 2022 2022 HOH HOH . C 3 HOH A 23 2023 2023 HOH HOH . C 3 HOH A 24 2024 2024 HOH HOH . C 3 HOH A 25 2025 2025 HOH HOH . C 3 HOH A 26 2026 2026 HOH HOH . C 3 HOH A 27 2027 2027 HOH HOH . C 3 HOH A 28 2028 2028 HOH HOH . C 3 HOH A 29 2029 2029 HOH HOH . C 3 HOH A 30 2030 2030 HOH HOH . C 3 HOH A 31 2031 2031 HOH HOH . C 3 HOH A 32 2032 2032 HOH HOH . C 3 HOH A 33 2033 2033 HOH HOH . C 3 HOH A 34 2034 2034 HOH HOH . C 3 HOH A 35 2035 2035 HOH HOH . C 3 HOH A 36 2036 2036 HOH HOH . C 3 HOH A 37 2037 2037 HOH HOH . C 3 HOH A 38 2038 2038 HOH HOH . C 3 HOH A 39 2039 2039 HOH HOH . C 3 HOH A 40 2040 2040 HOH HOH . C 3 HOH A 41 2041 2041 HOH HOH . C 3 HOH A 42 2042 2042 HOH HOH . C 3 HOH A 43 2043 2043 HOH HOH . C 3 HOH A 44 2044 2044 HOH HOH . C 3 HOH A 45 2045 2045 HOH HOH . C 3 HOH A 46 2046 2046 HOH HOH . C 3 HOH A 47 2047 2047 HOH HOH . C 3 HOH A 48 2048 2048 HOH HOH . C 3 HOH A 49 2049 2049 HOH HOH . C 3 HOH A 50 2050 2050 HOH HOH . C 3 HOH A 51 2051 2051 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 PG 8DG . . . B 2 3.647 21.986 -0.837 0.5 30.21 ? PG 8DG 1157 A 1 HETATM 2 O O1G 8DG . . . B 2 4.533 21.337 -1.839 0.5 31.66 ? O1G 8DG 1157 A 1 HETATM 3 O O2G 8DG . . . B 2 2.706 20.979 -0.13 0.5 31.59 ? O2G 8DG 1157 A 1 HETATM 4 O O3G 8DG . . . B 2 2.82 23.138 -1.409 0.5 32.16 ? O3G 8DG 1157 A 1 HETATM 5 O O3B 8DG . . . B 2 4.547 22.642 0.303 0.5 24.33 ? O3B 8DG 1157 A 1 HETATM 6 P PB 8DG . . . B 2 4.953 22.171 1.769 0.5 19.91 ? PB 8DG 1157 A 1 HETATM 7 O O1B 8DG . . . B 2 4.175 22.912 2.785 0.5 13.59 ? O1B 8DG 1157 A 1 HETATM 8 O O2B 8DG . . . B 2 4.765 20.664 1.899 0.5 21.59 ? O2B 8DG 1157 A 1 HETATM 9 O O3A 8DG . . . B 2 6.486 22.548 2.003 1 23.72 ? O3A 8DG 1157 A 1 HETATM 10 P PA 8DG . . . B 2 7.846 21.957 1.424 1 25.15 ? PA 8DG 1157 A 1 HETATM 11 O O1A 8DG . . . B 2 7.795 20.488 1.351 1 28.67 ? O1A 8DG 1157 A 1 HETATM 12 O O2A 8DG . . . B 2 8.141 22.649 0.093 1 25.96 ? O2A 8DG 1157 A 1 HETATM 13 O O5' 8DG . . . B 2 8.848 22.547 2.467 1 21.45 ? O5' 8DG 1157 A 1 HETATM 14 C C5' 8DG . . . B 2 10.252 22.22 2.423 1 22.27 ? C5' 8DG 1157 A 1 HETATM 15 C C4' 8DG . . . B 2 10.592 21.393 3.638 1 21.73 ? C4' 8DG 1157 A 1 HETATM 16 O O4' 8DG . . . B 2 11.958 20.921 3.525 1 23.31 ? O4' 8DG 1157 A 1 HETATM 17 C C3' 8DG . . . B 2 10.51 22.118 4.985 1 17.15 ? C3' 8DG 1157 A 1 HETATM 18 O O3' 8DG . . . B 2 10.28 21.131 5.991 1 22.01 ? O3' 8DG 1157 A 1 HETATM 19 C C2' 8DG . . . B 2 11.933 22.636 5.152 1 19.34 ? C2' 8DG 1157 A 1 HETATM 20 C C1' 8DG . . . B 2 12.754 21.496 4.557 1 20.49 ? C1' 8DG 1157 A 1 HETATM 21 N N9 8DG . . . B 2 14.055 21.861 3.992 1 23.45 ? N9 8DG 1157 A 1 HETATM 22 C C8 8DG . . . B 2 14.301 22.748 2.926 1 28.97 ? C8 8DG 1157 A 1 HETATM 23 N N7 8DG . . . B 2 15.662 22.763 2.706 1 26.94 ? N7 8DG 1157 A 1 HETATM 24 C C5 8DG . . . B 2 16.219 21.856 3.57 1 22.77 ? C5 8DG 1157 A 1 HETATM 25 C C6 8DG . . . B 2 17.577 21.543 3.811 1 21.48 ? C6 8DG 1157 A 1 HETATM 26 O O6 8DG . . . B 2 18.539 21.946 3.174 1 25.14 ? O6 8DG 1157 A 1 HETATM 27 N N1 8DG . . . B 2 17.741 20.618 4.821 1 19.03 ? N1 8DG 1157 A 1 HETATM 28 C C2 8DG . . . B 2 16.714 20.038 5.517 1 20.2 ? C2 8DG 1157 A 1 HETATM 29 N N2 8DG . . . B 2 17.041 19.155 6.451 1 19.23 ? N2 8DG 1157 A 1 HETATM 30 N N3 8DG . . . B 2 15.439 20.394 5.358 1 20.08 ? N3 8DG 1157 A 1 HETATM 31 C C4 8DG . . . B 2 15.271 21.326 4.398 1 20.29 ? C4 8DG 1157 A 1 HETATM 32 O O8 8DG . . . B 2 13.46 23.401 2.323 1 29.98 ? O8 8DG 1157 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #