data_1O8B # _model_server_result.job_id LGSVwjO6AySEsL-L5jouzw _model_server_result.datetime_utc '2024-11-23 05:21:46' _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 1o8b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1269}' # _entry.id 1O8B # _exptl.entry_id 1O8B _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.11 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 5-O-phosphono-beta-D-arabinofuranose _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.23 _cell.angle_beta 100.98 _cell.angle_gamma 98.98 _cell.entry_id 1O8B _cell.length_a 42.049 _cell.length_b 42.4 _cell.length_c 60.195 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1O8B _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A C HIS 89 A HIS 89 1_555 A N MSE 90 A MSE 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C MSE 90 A MSE 90 1_555 A N GLN 91 A GLN 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale3 A C GLN 91 A GLN 91 1_555 A N MSE 92 A MSE 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale4 A C MSE 92 A MSE 92 1_555 A N ILE 93 A ILE 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.349 ? covale ? covale5 A C PRO 137 A PRO 137 1_555 A N MSE 138 A MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale6 A C MSE 138 A MSE 138 1_555 A N ALA 139 A ALA 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale7 A C GLY 173 A GLY 173 1_555 A N MSE 174 A MSE 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale8 A C MSE 174 A MSE 174 1_555 A N GLU 175 A GLU 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale9 A C ALA 181 A ALA 181 1_555 A N MSE 182 A MSE 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 A C MSE 182 A MSE 182 1_555 A N GLU 183 A GLU 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale11 B C THR 41 B THR 41 1_555 B N MSE 42 B MSE 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale12 B C MSE 42 B MSE 42 1_555 B N LYS 43 B LYS 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale13 B C HIS 89 B HIS 89 1_555 B N MSE 90 B MSE 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale14 B C MSE 90 B MSE 90 1_555 B N GLN 91 B GLN 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale15 B C GLN 91 B GLN 91 1_555 B N MSE 92 B MSE 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale16 B C MSE 92 B MSE 92 1_555 B N ILE 93 B ILE 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale17 B C PRO 137 B PRO 137 1_555 B N MSE 138 B MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale18 B C MSE 138 B MSE 138 1_555 B N ALA 139 B ALA 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale19 B C GLY 173 B GLY 173 1_555 B N MSE 174 B MSE 174 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale20 B C MSE 174 B MSE 174 1_555 B N GLU 175 B GLU 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale21 B C ALA 181 B ALA 181 1_555 B N MSE 182 B MSE 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale22 B C MSE 182 B MSE 182 1_555 B N GLU 183 B GLU 183 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C5 H11 O8 P' _chem_comp.formula_weight 230.11 _chem_comp.id ABF _chem_comp.mon_nstd_flag n _chem_comp.name 5-O-phosphono-beta-D-arabinofuranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms "BETA-D-ARABINOFURANOSE-5'-PHOSPHATE;5-O-phosphono-beta-D-arabinose;5-O-phosphono-D-arabinose;5-O-phosphono-arabinose" # 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 C1 O4 ABF sing 1 n n C1 C2 ABF sing 2 n n C1 O1 ABF sing 3 n n C1 H1 ABF sing 4 n n O4 C4 ABF sing 5 n n C2 O2 ABF sing 6 n n C2 C3 ABF sing 7 n n C2 H2 ABF sing 8 n n O2 HO2 ABF sing 9 n n C3 O3 ABF sing 10 n n C3 C4 ABF sing 11 n n C3 H3 ABF sing 12 n n O3 HO3 ABF sing 13 n n C4 C5 ABF sing 14 n n C4 H4 ABF sing 15 n n C5 O5 ABF sing 16 n n C5 H51 ABF sing 17 n n C5 H52 ABF sing 18 n n O5 P' ABF sing 19 n n P' O1X ABF doub 20 n n P' O2X ABF sing 21 n n P' O3X ABF sing 22 n n O2X HO' ABF sing 23 n n O3X HOA ABF sing 24 n n O1 HO1 ABF sing 25 n n # _pdbx_chem_comp_identifier.comp_id ABF _pdbx_chem_comp_identifier.identifier b-D-Araf5PO3 _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 1O8B _atom_sites.fract_transf_matrix[1][1] 0.023782 _atom_sites.fract_transf_matrix[1][2] 0.003758 _atom_sites.fract_transf_matrix[1][3] 0.004748 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023878 _atom_sites.fract_transf_matrix[2][3] 0.000831 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.016933 _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 ABF A 1 1269 1269 ABF ABF . D 2 ABF B 1 1269 1269 ABF ABF . E 3 HOH A 1 2001 2001 HOH HOH . E 3 HOH A 2 2002 2002 HOH HOH . E 3 HOH A 3 2003 2003 HOH HOH . E 3 HOH A 4 2004 2004 HOH HOH . E 3 HOH A 5 2005 2005 HOH HOH . E 3 HOH A 6 2006 2006 HOH HOH . E 3 HOH A 7 2007 2007 HOH HOH . E 3 HOH A 8 2008 2008 HOH HOH . E 3 HOH A 9 2009 2009 HOH HOH . E 3 HOH A 10 2010 2010 HOH HOH . E 3 HOH A 11 2011 2011 HOH HOH . E 3 HOH A 12 2012 2012 HOH HOH . E 3 HOH A 13 2013 2013 HOH HOH . E 3 HOH A 14 2014 2014 HOH HOH . E 3 HOH A 15 2015 2015 HOH HOH . E 3 HOH A 16 2016 2016 HOH HOH . E 3 HOH A 17 2017 2017 HOH HOH . E 3 HOH A 18 2018 2018 HOH HOH . E 3 HOH A 19 2019 2019 HOH HOH . E 3 HOH A 20 2020 2020 HOH HOH . E 3 HOH A 21 2021 2021 HOH HOH . E 3 HOH A 22 2022 2022 HOH HOH . E 3 HOH A 23 2023 2023 HOH HOH . E 3 HOH A 24 2024 2024 HOH HOH . E 3 HOH A 25 2025 2025 HOH HOH . E 3 HOH A 26 2026 2026 HOH HOH . E 3 HOH A 27 2027 2027 HOH HOH . E 3 HOH A 28 2028 2028 HOH HOH . E 3 HOH A 29 2029 2029 HOH HOH . E 3 HOH A 30 2030 2030 HOH HOH . E 3 HOH A 31 2031 2031 HOH HOH . E 3 HOH A 32 2032 2032 HOH HOH . E 3 HOH A 33 2033 2033 HOH HOH . E 3 HOH A 34 2034 2034 HOH HOH . E 3 HOH A 35 2035 2035 HOH HOH . E 3 HOH A 36 2036 2036 HOH HOH . E 3 HOH A 37 2037 2037 HOH HOH . E 3 HOH A 38 2038 2038 HOH HOH . E 3 HOH A 39 2039 2039 HOH HOH . E 3 HOH A 40 2040 2040 HOH HOH . E 3 HOH A 41 2041 2041 HOH HOH . E 3 HOH A 42 2042 2042 HOH HOH . E 3 HOH A 43 2043 2043 HOH HOH . E 3 HOH A 44 2044 2044 HOH HOH . E 3 HOH A 45 2045 2045 HOH HOH . E 3 HOH A 46 2046 2046 HOH HOH . E 3 HOH A 47 2047 2047 HOH HOH . E 3 HOH A 48 2048 2048 HOH HOH . E 3 HOH A 49 2049 2049 HOH HOH . E 3 HOH A 50 2050 2050 HOH HOH . E 3 HOH A 51 2051 2051 HOH HOH . E 3 HOH A 52 2052 2052 HOH HOH . E 3 HOH A 53 2053 2053 HOH HOH . E 3 HOH A 54 2054 2054 HOH HOH . E 3 HOH A 55 2055 2055 HOH HOH . E 3 HOH A 56 2056 2056 HOH HOH . E 3 HOH A 57 2057 2057 HOH HOH . E 3 HOH A 58 2058 2058 HOH HOH . E 3 HOH A 59 2059 2059 HOH HOH . E 3 HOH A 60 2060 2060 HOH HOH . E 3 HOH A 61 2061 2061 HOH HOH . E 3 HOH A 62 2062 2062 HOH HOH . E 3 HOH A 63 2063 2063 HOH HOH . E 3 HOH A 64 2064 2064 HOH HOH . E 3 HOH A 65 2065 2065 HOH HOH . E 3 HOH A 66 2066 2066 HOH HOH . E 3 HOH A 67 2067 2067 HOH HOH . E 3 HOH A 68 2068 2068 HOH HOH . E 3 HOH A 69 2069 2069 HOH HOH . F 3 HOH B 1 2001 2001 HOH HOH . F 3 HOH B 2 2002 2002 HOH HOH . F 3 HOH B 3 2003 2003 HOH HOH . F 3 HOH B 4 2004 2004 HOH HOH . F 3 HOH B 5 2005 2005 HOH HOH . F 3 HOH B 6 2006 2006 HOH HOH . F 3 HOH B 7 2007 2007 HOH HOH . F 3 HOH B 8 2008 2008 HOH HOH . F 3 HOH B 9 2009 2009 HOH HOH . F 3 HOH B 10 2010 2010 HOH HOH . F 3 HOH B 11 2011 2011 HOH HOH . F 3 HOH B 12 2012 2012 HOH HOH . F 3 HOH B 13 2013 2013 HOH HOH . F 3 HOH B 14 2014 2014 HOH HOH . F 3 HOH B 15 2015 2015 HOH HOH . F 3 HOH B 16 2016 2016 HOH HOH . F 3 HOH B 17 2017 2017 HOH HOH . F 3 HOH B 18 2018 2018 HOH HOH . F 3 HOH B 19 2019 2019 HOH HOH . F 3 HOH B 20 2020 2020 HOH HOH . F 3 HOH B 21 2021 2021 HOH HOH . F 3 HOH B 22 2022 2022 HOH HOH . F 3 HOH B 23 2023 2023 HOH HOH . F 3 HOH B 24 2024 2024 HOH HOH . F 3 HOH B 25 2025 2025 HOH HOH . F 3 HOH B 26 2026 2026 HOH HOH . F 3 HOH B 27 2027 2027 HOH HOH . F 3 HOH B 28 2028 2028 HOH HOH . F 3 HOH B 29 2029 2029 HOH HOH . F 3 HOH B 30 2030 2030 HOH HOH . F 3 HOH B 31 2031 2031 HOH HOH . F 3 HOH B 32 2032 2032 HOH HOH . F 3 HOH B 33 2033 2033 HOH HOH . F 3 HOH B 34 2034 2034 HOH HOH . F 3 HOH B 35 2035 2035 HOH HOH . F 3 HOH B 36 2036 2036 HOH HOH . F 3 HOH B 37 2037 2037 HOH HOH . F 3 HOH B 38 2038 2038 HOH HOH . F 3 HOH B 39 2039 2039 HOH HOH . F 3 HOH B 40 2040 2040 HOH HOH . F 3 HOH B 41 2041 2041 HOH HOH . F 3 HOH B 42 2042 2042 HOH HOH . F 3 HOH B 43 2043 2043 HOH HOH . F 3 HOH B 44 2044 2044 HOH HOH . F 3 HOH B 45 2045 2045 HOH HOH . F 3 HOH B 46 2046 2046 HOH HOH . F 3 HOH B 47 2047 2047 HOH HOH . F 3 HOH B 48 2048 2048 HOH HOH . F 3 HOH B 49 2049 2049 HOH HOH . F 3 HOH B 50 2050 2050 HOH HOH . F 3 HOH B 51 2051 2051 HOH HOH . F 3 HOH B 52 2052 2052 HOH HOH . F 3 HOH B 53 2053 2053 HOH HOH . F 3 HOH B 54 2054 2054 HOH HOH . F 3 HOH B 55 2055 2055 HOH HOH . F 3 HOH B 56 2056 2056 HOH HOH . F 3 HOH B 57 2057 2057 HOH HOH . F 3 HOH B 58 2058 2058 HOH HOH . F 3 HOH B 59 2059 2059 HOH HOH . F 3 HOH B 60 2060 2060 HOH HOH . F 3 HOH B 61 2061 2061 HOH HOH . F 3 HOH B 62 2062 2062 HOH HOH . F 3 HOH B 63 2063 2063 HOH HOH . F 3 HOH B 64 2064 2064 HOH HOH . F 3 HOH B 65 2065 2065 HOH HOH . F 3 HOH B 66 2066 2066 HOH HOH . F 3 HOH B 67 2067 2067 HOH HOH . F 3 HOH B 68 2068 2068 HOH HOH . F 3 HOH B 69 2069 2069 HOH HOH . F 3 HOH B 70 2070 2070 HOH HOH . F 3 HOH B 71 2071 2071 HOH HOH . F 3 HOH B 72 2072 2072 HOH HOH . F 3 HOH B 73 2073 2073 HOH HOH . F 3 HOH B 74 2074 2074 HOH HOH . F 3 HOH B 75 2075 2075 HOH HOH . F 3 HOH B 76 2076 2076 HOH HOH . F 3 HOH B 77 2077 2077 HOH HOH . F 3 HOH B 78 2078 2078 HOH HOH . F 3 HOH B 79 2079 2079 HOH HOH . F 3 HOH B 80 2080 2080 HOH HOH . F 3 HOH B 81 2081 2081 HOH HOH . F 3 HOH B 82 2082 2082 HOH HOH . F 3 HOH B 83 2083 2083 HOH HOH . F 3 HOH B 84 2084 2084 HOH HOH . F 3 HOH B 85 2085 2085 HOH HOH . F 3 HOH B 86 2086 2086 HOH HOH . F 3 HOH B 87 2087 2087 HOH HOH . F 3 HOH B 88 2088 2088 HOH HOH . F 3 HOH B 89 2089 2089 HOH HOH . F 3 HOH B 90 2090 2090 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 C1 ABF . . . D 2 21.759 19.837 19.998 1 14.27 ? C1 ABF 1269 B 1 HETATM 2 O O4 ABF . . . D 2 23.114 20.329 19.887 1 13.89 ? O4 ABF 1269 B 1 HETATM 3 C C2 ABF . . . D 2 21.208 19.972 18.734 1 12.15 ? C2 ABF 1269 B 1 HETATM 4 O O2 ABF . . . D 2 19.926 19.77 18.584 1 12.14 ? O2 ABF 1269 B 1 HETATM 5 C C3 ABF . . . D 2 21.752 21.12 18.201 1 11.6 ? C3 ABF 1269 B 1 HETATM 6 O O3 ABF . . . D 2 21.819 21.226 16.891 1 14.23 ? O3 ABF 1269 B 1 HETATM 7 C C4 ABF . . . D 2 22.938 21.346 18.866 1 14.71 ? C4 ABF 1269 B 1 HETATM 8 C C5 ABF . . . D 2 23.264 22.732 19.401 1 12.59 ? C5 ABF 1269 B 1 HETATM 9 O O5 ABF . . . D 2 24.638 22.781 19.857 1 13.13 ? O5 ABF 1269 B 1 HETATM 10 P P' ABF . . . D 2 25.341 24.082 20.497 1 12.64 ? P' ABF 1269 B 1 HETATM 11 O O1X ABF . . . D 2 25.09 25.233 19.599 1 13.61 ? O1X ABF 1269 B 1 HETATM 12 O O2X ABF . . . D 2 24.753 24.306 21.877 1 13.15 ? O2X ABF 1269 B 1 HETATM 13 O O3X ABF . . . D 2 26.753 23.616 20.574 1 14.82 ? O3X ABF 1269 B 1 HETATM 14 O O1 ABF . . . D 2 21.099 20.454 20.919 1 13.67 ? O1 ABF 1269 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #