data_2C5B # _model_server_result.job_id H-e9ncpuWP1fUlTzWG4wRw _model_server_result.datetime_utc '2025-03-06 10:18:21' _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 2c5b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":500}' # _entry.id 2C5B # _exptl.entry_id 2C5B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 253.233 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-FLUORO-2',5'-DIDEOXYADENOSINE" _entity.pdbx_number_of_molecules 3 _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 2C5B _cell.length_a 76.153 _cell.length_b 129.669 _cell.length_c 183.165 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2C5B _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -91.5825 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 G N N ? 3 I N N # _chem_comp.formula 'C10 H12 F N5 O2' _chem_comp.formula_weight 253.233 _chem_comp.id 5F1 _chem_comp.mon_nstd_flag . _chem_comp.name "5'-FLUORO-2',5'-DIDEOXYADENOSINE" _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 C2' C3' 5F1 sing 1 n n C2' C1' 5F1 sing 2 n n C2' "H2'1" 5F1 sing 3 n n C2' "H2'2" 5F1 sing 4 n n C3' O3' 5F1 sing 5 n n C3' C4' 5F1 sing 6 n n C3' H3' 5F1 sing 7 n n O3' HA 5F1 sing 8 n n C4' C5' 5F1 sing 9 n n C4' O4' 5F1 sing 10 n n C4' H4' 5F1 sing 11 n n C5' F19 5F1 sing 12 n n C5' "H5'1" 5F1 sing 13 n n C5' "H5'2" 5F1 sing 14 n n O4' C1' 5F1 sing 15 n n C1' N9 5F1 sing 16 n n C1' H1' 5F1 sing 17 n n N9 C8 5F1 sing 18 n y N9 C4 5F1 sing 19 n y C8 N7 5F1 doub 20 n y C8 H8 5F1 sing 21 n n N7 C5 5F1 sing 22 n y C5 C4 5F1 doub 23 n y C5 C6 5F1 sing 24 n y C4 N3 5F1 sing 25 n y N3 C2 5F1 doub 26 n y C2 N1 5F1 sing 27 n y C2 H2 5F1 sing 28 n n N1 C6 5F1 doub 29 n y C6 N6 5F1 sing 30 n n N6 H6N1 5F1 sing 31 n n N6 H6N2 5F1 sing 32 n n # _atom_sites.entry_id 2C5B _atom_sites.fract_transf_matrix[1][1] 0.013131 _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] 0.007712 _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] 0.00546 _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 D 2 MET A 1 600 600 MET MET . E 3 5F1 A 1 500 500 5F1 5F1 . F 2 MET B 1 600 600 MET MET . G 3 5F1 B 1 500 500 5F1 5F1 . H 2 MET C 1 600 600 MET MET . I 3 5F1 C 1 500 500 5F1 5F1 . J 4 HOH A 1 2001 2001 HOH HOH . J 4 HOH A 2 2002 2002 HOH HOH . J 4 HOH A 3 2003 2003 HOH HOH . J 4 HOH A 4 2004 2004 HOH HOH . J 4 HOH A 5 2005 2005 HOH HOH . J 4 HOH A 6 2006 2006 HOH HOH . J 4 HOH A 7 2007 2007 HOH HOH . J 4 HOH A 8 2008 2008 HOH HOH . J 4 HOH A 9 2009 2009 HOH HOH . J 4 HOH A 10 2010 2010 HOH HOH . J 4 HOH A 11 2011 2011 HOH HOH . J 4 HOH A 12 2012 2012 HOH HOH . J 4 HOH A 13 2013 2013 HOH HOH . J 4 HOH A 14 2014 2014 HOH HOH . J 4 HOH A 15 2015 2015 HOH HOH . J 4 HOH A 16 2016 2016 HOH HOH . J 4 HOH A 17 2017 2017 HOH HOH . J 4 HOH A 18 2018 2018 HOH HOH . J 4 HOH A 19 2019 2019 HOH HOH . J 4 HOH A 20 2020 2020 HOH HOH . J 4 HOH A 21 2021 2021 HOH HOH . J 4 HOH A 22 2022 2022 HOH HOH . J 4 HOH A 23 2023 2023 HOH HOH . J 4 HOH A 24 2024 2024 HOH HOH . J 4 HOH A 25 2025 2025 HOH HOH . J 4 HOH A 26 2026 2026 HOH HOH . J 4 HOH A 27 2027 2027 HOH HOH . J 4 HOH A 28 2028 2028 HOH HOH . J 4 HOH A 29 2029 2029 HOH HOH . J 4 HOH A 30 2030 2030 HOH HOH . J 4 HOH A 31 2031 2031 HOH HOH . J 4 HOH A 32 2032 2032 HOH HOH . J 4 HOH A 33 2033 2033 HOH HOH . J 4 HOH A 34 2034 2034 HOH HOH . J 4 HOH A 35 2035 2035 HOH HOH . J 4 HOH A 36 2036 2036 HOH HOH . J 4 HOH A 37 2037 2037 HOH HOH . J 4 HOH A 38 2038 2038 HOH HOH . J 4 HOH A 39 2039 2039 HOH HOH . J 4 HOH A 40 2040 2040 HOH HOH . J 4 HOH A 41 2041 2041 HOH HOH . J 4 HOH A 42 2042 2042 HOH HOH . J 4 HOH A 43 2043 2043 HOH HOH . J 4 HOH A 44 2044 2044 HOH HOH . J 4 HOH A 45 2045 2045 HOH HOH . J 4 HOH A 46 2046 2046 HOH HOH . J 4 HOH A 47 2047 2047 HOH HOH . J 4 HOH A 48 2048 2048 HOH HOH . J 4 HOH A 49 2049 2049 HOH HOH . J 4 HOH A 50 2050 2050 HOH HOH . J 4 HOH A 51 2051 2051 HOH HOH . J 4 HOH A 52 2052 2052 HOH HOH . J 4 HOH A 53 2053 2053 HOH HOH . J 4 HOH A 54 2054 2054 HOH HOH . J 4 HOH A 55 2055 2055 HOH HOH . J 4 HOH A 56 2056 2056 HOH HOH . J 4 HOH A 57 2057 2057 HOH HOH . J 4 HOH A 58 2058 2058 HOH HOH . J 4 HOH A 59 2059 2059 HOH HOH . J 4 HOH A 60 2060 2060 HOH HOH . J 4 HOH A 61 2061 2061 HOH HOH . J 4 HOH A 62 2062 2062 HOH HOH . J 4 HOH A 63 2063 2063 HOH HOH . J 4 HOH A 64 2064 2064 HOH HOH . J 4 HOH A 65 2065 2065 HOH HOH . J 4 HOH A 66 2066 2066 HOH HOH . J 4 HOH A 67 2067 2067 HOH HOH . K 4 HOH B 1 2001 2001 HOH HOH . K 4 HOH B 2 2002 2002 HOH HOH . K 4 HOH B 3 2003 2003 HOH HOH . K 4 HOH B 4 2004 2004 HOH HOH . K 4 HOH B 5 2005 2005 HOH HOH . K 4 HOH B 6 2006 2006 HOH HOH . K 4 HOH B 7 2007 2007 HOH HOH . K 4 HOH B 8 2008 2008 HOH HOH . K 4 HOH B 9 2009 2009 HOH HOH . K 4 HOH B 10 2010 2010 HOH HOH . K 4 HOH B 11 2011 2011 HOH HOH . K 4 HOH B 12 2012 2012 HOH HOH . K 4 HOH B 13 2013 2013 HOH HOH . K 4 HOH B 14 2014 2014 HOH HOH . K 4 HOH B 15 2015 2015 HOH HOH . K 4 HOH B 16 2016 2016 HOH HOH . K 4 HOH B 17 2017 2017 HOH HOH . K 4 HOH B 18 2018 2018 HOH HOH . K 4 HOH B 19 2019 2019 HOH HOH . K 4 HOH B 20 2020 2020 HOH HOH . K 4 HOH B 21 2021 2021 HOH HOH . K 4 HOH B 22 2022 2022 HOH HOH . K 4 HOH B 23 2023 2023 HOH HOH . K 4 HOH B 24 2024 2024 HOH HOH . K 4 HOH B 25 2025 2025 HOH HOH . K 4 HOH B 26 2026 2026 HOH HOH . K 4 HOH B 27 2027 2027 HOH HOH . K 4 HOH B 28 2028 2028 HOH HOH . K 4 HOH B 29 2029 2029 HOH HOH . K 4 HOH B 30 2030 2030 HOH HOH . K 4 HOH B 31 2031 2031 HOH HOH . K 4 HOH B 32 2032 2032 HOH HOH . K 4 HOH B 33 2033 2033 HOH HOH . K 4 HOH B 34 2034 2034 HOH HOH . K 4 HOH B 35 2035 2035 HOH HOH . K 4 HOH B 36 2036 2036 HOH HOH . K 4 HOH B 37 2037 2037 HOH HOH . K 4 HOH B 38 2038 2038 HOH HOH . K 4 HOH B 39 2039 2039 HOH HOH . K 4 HOH B 40 2040 2040 HOH HOH . K 4 HOH B 41 2041 2041 HOH HOH . K 4 HOH B 42 2042 2042 HOH HOH . K 4 HOH B 43 2043 2043 HOH HOH . K 4 HOH B 44 2044 2044 HOH HOH . K 4 HOH B 45 2045 2045 HOH HOH . K 4 HOH B 46 2046 2046 HOH HOH . K 4 HOH B 47 2047 2047 HOH HOH . K 4 HOH B 48 2048 2048 HOH HOH . K 4 HOH B 49 2049 2049 HOH HOH . K 4 HOH B 50 2050 2050 HOH HOH . K 4 HOH B 51 2051 2051 HOH HOH . K 4 HOH B 52 2052 2052 HOH HOH . K 4 HOH B 53 2053 2053 HOH HOH . K 4 HOH B 54 2054 2054 HOH HOH . K 4 HOH B 55 2055 2055 HOH HOH . K 4 HOH B 56 2056 2056 HOH HOH . K 4 HOH B 57 2057 2057 HOH HOH . K 4 HOH B 58 2058 2058 HOH HOH . K 4 HOH B 59 2059 2059 HOH HOH . K 4 HOH B 60 2060 2060 HOH HOH . K 4 HOH B 61 2061 2061 HOH HOH . K 4 HOH B 62 2062 2062 HOH HOH . K 4 HOH B 63 2063 2063 HOH HOH . K 4 HOH B 64 2064 2064 HOH HOH . K 4 HOH B 65 2065 2065 HOH HOH . K 4 HOH B 66 2066 2066 HOH HOH . K 4 HOH B 67 2067 2067 HOH HOH . K 4 HOH B 68 2068 2068 HOH HOH . L 4 HOH C 1 2001 2001 HOH HOH . L 4 HOH C 2 2002 2002 HOH HOH . L 4 HOH C 3 2003 2003 HOH HOH . L 4 HOH C 4 2004 2004 HOH HOH . L 4 HOH C 5 2005 2005 HOH HOH . L 4 HOH C 6 2006 2006 HOH HOH . L 4 HOH C 7 2007 2007 HOH HOH . L 4 HOH C 8 2008 2008 HOH HOH . L 4 HOH C 9 2009 2009 HOH HOH . L 4 HOH C 10 2010 2010 HOH HOH . L 4 HOH C 11 2011 2011 HOH HOH . L 4 HOH C 12 2012 2012 HOH HOH . L 4 HOH C 13 2013 2013 HOH HOH . L 4 HOH C 14 2014 2014 HOH HOH . L 4 HOH C 15 2015 2015 HOH HOH . L 4 HOH C 16 2016 2016 HOH HOH . L 4 HOH C 17 2017 2017 HOH HOH . L 4 HOH C 18 2018 2018 HOH HOH . L 4 HOH C 19 2019 2019 HOH HOH . L 4 HOH C 20 2020 2020 HOH HOH . L 4 HOH C 21 2021 2021 HOH HOH . L 4 HOH C 22 2022 2022 HOH HOH . L 4 HOH C 23 2023 2023 HOH HOH . L 4 HOH C 24 2024 2024 HOH HOH . L 4 HOH C 25 2025 2025 HOH HOH . L 4 HOH C 26 2026 2026 HOH HOH . L 4 HOH C 27 2027 2027 HOH HOH . L 4 HOH C 28 2028 2028 HOH HOH . L 4 HOH C 29 2029 2029 HOH HOH . L 4 HOH C 30 2030 2030 HOH HOH . L 4 HOH C 31 2031 2031 HOH HOH . L 4 HOH C 32 2032 2032 HOH HOH . L 4 HOH C 33 2033 2033 HOH HOH . L 4 HOH C 34 2034 2034 HOH HOH . L 4 HOH C 35 2035 2035 HOH HOH . L 4 HOH C 36 2036 2036 HOH HOH . L 4 HOH C 37 2037 2037 HOH HOH . L 4 HOH C 38 2038 2038 HOH HOH . L 4 HOH C 39 2039 2039 HOH HOH . L 4 HOH C 40 2040 2040 HOH HOH . L 4 HOH C 41 2041 2041 HOH HOH . L 4 HOH C 42 2042 2042 HOH HOH . L 4 HOH C 43 2043 2043 HOH HOH . L 4 HOH C 44 2044 2044 HOH HOH . L 4 HOH C 45 2045 2045 HOH HOH . L 4 HOH C 46 2046 2046 HOH HOH . L 4 HOH C 47 2047 2047 HOH HOH . L 4 HOH C 48 2048 2048 HOH HOH . L 4 HOH C 49 2049 2049 HOH HOH . L 4 HOH C 50 2050 2050 HOH HOH . L 4 HOH C 51 2051 2051 HOH HOH . L 4 HOH C 52 2052 2052 HOH HOH . L 4 HOH C 53 2053 2053 HOH HOH . L 4 HOH C 54 2054 2054 HOH HOH . L 4 HOH C 55 2055 2055 HOH HOH . L 4 HOH C 56 2056 2056 HOH HOH . L 4 HOH C 57 2057 2057 HOH HOH . L 4 HOH C 58 2058 2058 HOH HOH . L 4 HOH C 59 2059 2059 HOH HOH . L 4 HOH C 60 2060 2060 HOH HOH . L 4 HOH C 61 2061 2061 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 C C2' 5F1 . . . G 3 -6.218 21.328 -23.804 1 12.48 ? C2' 5F1 500 B 1 HETATM 2 C C3' 5F1 . . . G 3 -6.257 22.187 -22.539 1 12.42 ? C3' 5F1 500 B 1 HETATM 3 O O3' 5F1 . . . G 3 -5.007 22.108 -21.852 1 12.1 ? O3' 5F1 500 B 1 HETATM 4 C C4' 5F1 . . . G 3 -7.313 21.464 -21.739 1 12.42 ? C4' 5F1 500 B 1 HETATM 5 C C5' 5F1 . . . G 3 -7.915 22.352 -20.704 1 12.23 ? C5' 5F1 500 B 1 HETATM 6 F F19 5F1 . . . G 3 -7.706 21.722 -19.507 1 15.31 ? F19 5F1 500 B 1 HETATM 7 O O4' 5F1 . . . G 3 -8.329 21.192 -22.702 1 12.92 ? O4' 5F1 500 B 1 HETATM 8 C C1' 5F1 . . . G 3 -7.626 20.74 -23.898 1 11.29 ? C1' 5F1 500 B 1 HETATM 9 N N9 5F1 . . . G 3 -8.358 21.231 -25.104 1 11.36 ? N9 5F1 500 B 1 HETATM 10 C C8 5F1 . . . G 3 -8.558 22.507 -25.47 1 10.46 ? C8 5F1 500 B 1 HETATM 11 N N7 5F1 . . . G 3 -9.267 22.545 -26.606 1 9.73 ? N7 5F1 500 B 1 HETATM 12 C C5 5F1 . . . G 3 -9.517 21.288 -26.965 1 10.76 ? C5 5F1 500 B 1 HETATM 13 C C4 5F1 . . . G 3 -8.947 20.456 -26.009 1 11.05 ? C4 5F1 500 B 1 HETATM 14 N N3 5F1 . . . G 3 -9.047 19.119 -26.141 1 11.53 ? N3 5F1 500 B 1 HETATM 15 C C2 5F1 . . . G 3 -9.694 18.573 -27.161 1 10.34 ? C2 5F1 500 B 1 HETATM 16 N N1 5F1 . . . G 3 -10.25 19.344 -28.089 1 11.24 ? N1 5F1 500 B 1 HETATM 17 C C6 5F1 . . . G 3 -10.185 20.693 -28.036 1 11.23 ? C6 5F1 500 B 1 HETATM 18 N N6 5F1 . . . G 3 -10.759 21.435 -28.991 1 10.8 ? N6 5F1 500 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 18 #