data_5FUB # _model_server_result.job_id zD45ORzQdgzQBS6ntJh1Ow _model_server_result.datetime_utc '2024-11-28 18:27:37' _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 5fub # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":409}' # _entry.id 5FUB # _exptl.entry_id 5FUB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 5FUB _cell.length_a 147.07 _cell.length_b 147.07 _cell.length_c 127.39 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FUB _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _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,G,H,I,J,K _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_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 127.39 # _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 # 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 metalc ? metalc1 A OE1 GLU 84 A GLU 155 1_555 E NA NA . A NA 1410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc2 A OD2 ASP 212 A ASP 283 1_555 J NA NA . A NA 1415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.513 ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide 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 N CA SAH sing 311 n n N HN1 SAH sing 312 n n N HN2 SAH sing 313 n n CA CB SAH sing 314 n n CA C SAH sing 315 n n CA HA SAH sing 316 n n CB CG SAH sing 317 n n CB HB1 SAH sing 318 n n CB HB2 SAH sing 319 n n CG SD SAH sing 320 n n CG HG1 SAH sing 321 n n CG HG2 SAH sing 322 n n SD C5' SAH sing 323 n n C O SAH doub 324 n n C OXT SAH sing 325 n n OXT HXT SAH sing 326 n n C5' C4' SAH sing 327 n n C5' "H5'1" SAH sing 328 n n C5' "H5'2" SAH sing 329 n n C4' O4' SAH sing 330 n n C4' C3' SAH sing 331 n n C4' H4' SAH sing 332 n n O4' C1' SAH sing 333 n n C3' O3' SAH sing 334 n n C3' C2' SAH sing 335 n n C3' H3' SAH sing 336 n n O3' HO3' SAH sing 337 n n C2' O2' SAH sing 338 n n C2' C1' SAH sing 339 n n C2' H2' SAH sing 340 n n O2' HO2' SAH sing 341 n n C1' N9 SAH sing 342 n n C1' H1' SAH sing 343 n n N9 C8 SAH sing 344 n y N9 C4 SAH sing 345 n y C8 N7 SAH doub 346 n y C8 H8 SAH sing 347 n n N7 C5 SAH sing 348 n y C5 C6 SAH sing 349 n y C5 C4 SAH doub 350 n y C6 N6 SAH sing 351 n n C6 N1 SAH doub 352 n y N6 HN61 SAH sing 353 n n N6 HN62 SAH sing 354 n n N1 C2 SAH sing 355 n y C2 N3 SAH doub 356 n y C2 H2 SAH sing 357 n n N3 C4 SAH sing 358 n y # _atom_sites.entry_id 5FUB _atom_sites.fract_transf_matrix[1][1] 0.006799 _atom_sites.fract_transf_matrix[1][2] 0.003926 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007851 _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] 0.00785 _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 SAH A 1 409 409 SAH SAH . C 3 MES A 1 417 417 MES MES . D 4 CL A 1 1409 1409 CL CL . E 5 NA A 1 1410 1410 NA NA . F 6 EDO A 1 1411 1411 EDO EDO . G 6 EDO A 1 1412 1412 EDO EDO . H 6 EDO A 1 1413 1413 EDO EDO . I 6 EDO A 1 1414 1414 EDO EDO . J 5 NA A 1 1415 1415 NA NA . K 7 HOH A 1 2001 2001 HOH HOH . K 7 HOH A 2 2002 2002 HOH HOH . K 7 HOH A 3 2003 2003 HOH HOH . K 7 HOH A 4 2004 2004 HOH HOH . K 7 HOH A 5 2005 2005 HOH HOH . K 7 HOH A 6 2006 2006 HOH HOH . K 7 HOH A 7 2007 2007 HOH HOH . K 7 HOH A 8 2008 2008 HOH HOH . K 7 HOH A 9 2009 2009 HOH HOH . K 7 HOH A 10 2010 2010 HOH HOH . K 7 HOH A 11 2011 2011 HOH HOH . K 7 HOH A 12 2012 2012 HOH HOH . K 7 HOH A 13 2013 2013 HOH HOH . K 7 HOH A 14 2014 2014 HOH HOH . K 7 HOH A 15 2015 2015 HOH HOH . K 7 HOH A 16 2016 2016 HOH HOH . K 7 HOH A 17 2017 2017 HOH HOH . K 7 HOH A 18 2018 2018 HOH HOH . K 7 HOH A 19 2019 2019 HOH HOH . K 7 HOH A 20 2020 2020 HOH HOH . K 7 HOH A 21 2021 2021 HOH HOH . K 7 HOH A 22 2022 2022 HOH HOH . K 7 HOH A 23 2023 2023 HOH HOH . K 7 HOH A 24 2024 2024 HOH HOH . K 7 HOH A 25 2025 2025 HOH HOH . K 7 HOH A 26 2026 2026 HOH HOH . K 7 HOH A 27 2027 2027 HOH HOH . K 7 HOH A 28 2028 2028 HOH HOH . K 7 HOH A 29 2029 2029 HOH HOH . K 7 HOH A 30 2030 2030 HOH HOH . K 7 HOH A 31 2031 2031 HOH HOH . K 7 HOH A 32 2032 2032 HOH HOH . K 7 HOH A 33 2033 2033 HOH HOH . K 7 HOH A 34 2034 2034 HOH HOH . K 7 HOH A 35 2035 2035 HOH HOH . K 7 HOH A 36 2036 2036 HOH HOH . K 7 HOH A 37 2037 2037 HOH HOH . K 7 HOH A 38 2038 2038 HOH HOH . K 7 HOH A 39 2039 2039 HOH HOH . K 7 HOH A 40 2040 2040 HOH HOH . K 7 HOH A 41 2041 2041 HOH HOH . K 7 HOH A 42 2042 2042 HOH HOH . K 7 HOH A 43 2043 2043 HOH HOH . K 7 HOH A 44 2044 2044 HOH HOH . K 7 HOH A 45 2045 2045 HOH HOH . K 7 HOH A 46 2046 2046 HOH HOH . K 7 HOH A 47 2047 2047 HOH HOH . K 7 HOH A 48 2048 2048 HOH HOH . K 7 HOH A 49 2049 2049 HOH HOH . K 7 HOH A 50 2050 2050 HOH HOH . K 7 HOH A 51 2051 2051 HOH HOH . K 7 HOH A 52 2052 2052 HOH HOH . K 7 HOH A 53 2053 2053 HOH HOH . K 7 HOH A 54 2054 2054 HOH HOH . K 7 HOH A 55 2055 2055 HOH HOH . K 7 HOH A 56 2056 2056 HOH HOH . K 7 HOH A 57 2057 2057 HOH HOH . K 7 HOH A 58 2058 2058 HOH HOH . K 7 HOH A 59 2059 2059 HOH HOH . K 7 HOH A 60 2060 2060 HOH HOH . K 7 HOH A 61 2061 2061 HOH HOH . K 7 HOH A 62 2062 2062 HOH HOH . K 7 HOH A 63 2063 2063 HOH HOH . K 7 HOH A 64 2064 2064 HOH HOH . K 7 HOH A 65 2065 2065 HOH HOH . K 7 HOH A 66 2066 2066 HOH HOH . K 7 HOH A 67 2067 2067 HOH HOH . K 7 HOH A 68 2068 2068 HOH HOH . K 7 HOH A 69 2069 2069 HOH HOH . K 7 HOH A 70 2070 2070 HOH HOH . K 7 HOH A 71 2071 2071 HOH HOH . K 7 HOH A 72 2072 2072 HOH HOH . K 7 HOH A 73 2073 2073 HOH HOH . K 7 HOH A 74 2074 2074 HOH HOH . K 7 HOH A 75 2075 2075 HOH HOH . K 7 HOH A 76 2076 2076 HOH HOH . K 7 HOH A 77 2077 2077 HOH HOH . K 7 HOH A 78 2078 2078 HOH HOH . K 7 HOH A 79 2079 2079 HOH HOH . K 7 HOH A 80 2080 2080 HOH HOH . K 7 HOH A 81 2081 2081 HOH HOH . K 7 HOH A 82 2082 2082 HOH HOH . K 7 HOH A 83 2083 2083 HOH HOH . K 7 HOH A 84 2084 2084 HOH HOH . K 7 HOH A 85 2085 2085 HOH HOH . K 7 HOH A 86 2086 2086 HOH HOH . K 7 HOH A 87 2087 2087 HOH HOH . K 7 HOH A 88 2088 2088 HOH HOH . K 7 HOH A 89 2089 2089 HOH HOH . K 7 HOH A 90 2090 2090 HOH HOH . K 7 HOH A 91 2091 2091 HOH HOH . K 7 HOH A 92 2092 2092 HOH HOH . K 7 HOH A 93 2093 2093 HOH HOH . K 7 HOH A 94 2094 2094 HOH HOH . K 7 HOH A 95 2095 2095 HOH HOH . K 7 HOH A 96 2096 2096 HOH HOH . K 7 HOH A 97 2097 2097 HOH HOH . K 7 HOH A 98 2098 2098 HOH HOH . K 7 HOH A 99 2099 2099 HOH HOH . K 7 HOH A 100 2100 2100 HOH HOH . K 7 HOH A 101 2101 2101 HOH HOH . K 7 HOH A 102 2102 2102 HOH HOH . K 7 HOH A 103 2103 2103 HOH HOH . K 7 HOH A 104 2104 2104 HOH HOH . K 7 HOH A 105 2105 2105 HOH HOH . K 7 HOH A 106 2106 2106 HOH HOH . K 7 HOH A 107 2107 2107 HOH HOH . K 7 HOH A 108 2108 2108 HOH HOH . K 7 HOH A 109 2109 2109 HOH HOH . K 7 HOH A 110 2110 2110 HOH HOH . K 7 HOH A 111 2111 2111 HOH HOH . K 7 HOH A 112 2112 2112 HOH HOH . K 7 HOH A 113 2113 2113 HOH HOH . K 7 HOH A 114 2114 2114 HOH HOH . K 7 HOH A 115 2115 2115 HOH HOH . K 7 HOH A 116 2116 2116 HOH HOH . K 7 HOH A 117 2117 2117 HOH HOH . K 7 HOH A 118 2118 2118 HOH HOH . K 7 HOH A 119 2119 2119 HOH HOH . K 7 HOH A 120 2120 2120 HOH HOH . K 7 HOH A 121 2121 2121 HOH HOH . K 7 HOH A 122 2122 2122 HOH HOH . K 7 HOH A 123 2123 2123 HOH HOH . K 7 HOH A 124 2124 2124 HOH HOH . K 7 HOH A 125 2125 2125 HOH HOH . K 7 HOH A 126 2126 2126 HOH HOH . K 7 HOH A 127 2127 2127 HOH HOH . K 7 HOH A 128 2128 2128 HOH HOH . K 7 HOH A 129 2129 2129 HOH HOH . K 7 HOH A 130 2130 2130 HOH HOH . K 7 HOH A 131 2131 2131 HOH HOH . K 7 HOH A 132 2132 2132 HOH HOH . K 7 HOH A 133 2133 2133 HOH HOH . K 7 HOH A 134 2134 2134 HOH HOH . K 7 HOH A 135 2135 2135 HOH HOH . K 7 HOH A 136 2136 2136 HOH HOH . K 7 HOH A 137 2137 2137 HOH HOH . K 7 HOH A 138 2138 2138 HOH HOH . K 7 HOH A 139 2139 2139 HOH HOH . K 7 HOH A 140 2140 2140 HOH HOH . K 7 HOH A 141 2141 2141 HOH HOH . K 7 HOH A 142 2142 2142 HOH HOH . K 7 HOH A 143 2143 2143 HOH HOH . K 7 HOH A 144 2144 2144 HOH HOH . K 7 HOH A 145 2145 2145 HOH HOH . K 7 HOH A 146 2146 2146 HOH HOH . K 7 HOH A 147 2147 2147 HOH HOH . K 7 HOH A 148 2148 2148 HOH HOH . K 7 HOH A 149 2149 2149 HOH HOH . K 7 HOH A 150 2150 2150 HOH HOH . K 7 HOH A 151 2151 2151 HOH HOH . K 7 HOH A 152 2152 2152 HOH HOH . K 7 HOH A 153 2153 2153 HOH HOH . K 7 HOH A 154 2154 2154 HOH HOH . K 7 HOH A 155 2155 2155 HOH HOH . K 7 HOH A 156 2156 2156 HOH HOH . K 7 HOH A 157 2157 2157 HOH HOH . K 7 HOH A 158 2158 2158 HOH HOH . K 7 HOH A 159 2159 2159 HOH HOH . K 7 HOH A 160 2160 2160 HOH HOH . K 7 HOH A 161 2161 2161 HOH HOH . K 7 HOH A 162 2162 2162 HOH HOH . K 7 HOH A 163 2163 2163 HOH HOH . K 7 HOH A 164 2164 2164 HOH HOH . K 7 HOH A 165 2165 2165 HOH HOH . K 7 HOH A 166 2166 2166 HOH HOH . K 7 HOH A 167 2167 2167 HOH HOH . K 7 HOH A 168 2168 2168 HOH HOH . K 7 HOH A 169 2169 2169 HOH HOH . K 7 HOH A 170 2170 2170 HOH HOH . K 7 HOH A 171 2171 2171 HOH HOH . K 7 HOH A 172 2172 2172 HOH HOH . K 7 HOH A 173 2173 2173 HOH HOH . K 7 HOH A 174 2174 2174 HOH HOH . K 7 HOH A 175 2175 2175 HOH HOH . K 7 HOH A 176 2176 2176 HOH HOH . K 7 HOH A 177 2177 2177 HOH HOH . K 7 HOH A 178 2178 2178 HOH HOH . K 7 HOH A 179 2179 2179 HOH HOH . K 7 HOH A 180 2180 2180 HOH HOH . K 7 HOH A 181 2181 2181 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 N N SAH . . . B 2 2.012 25.612 43.596 1 43.79 ? N SAH 409 A 1 HETATM 2 C CA SAH . . . B 2 1.954 25.941 44.994 1 45.47 ? CA SAH 409 A 1 HETATM 3 C CB SAH . . . B 2 2.305 24.769 45.849 1 41.4 ? CB SAH 409 A 1 HETATM 4 C CG SAH . . . B 2 3.682 24.109 45.658 1 38.29 ? CG SAH 409 A 1 HETATM 5 S SD SAH . . . B 2 4.042 22.676 46.641 1 39.24 ? SD SAH 409 A 1 HETATM 6 C C SAH . . . B 2 2.921 27.074 45.278 1 50.2 ? C SAH 409 A 1 HETATM 7 O O SAH . . . B 2 3.859 27.32 44.468 1 49.28 ? O SAH 409 A 1 HETATM 8 O OXT SAH . . . B 2 2.783 27.764 46.326 1 47.38 ? OXT SAH 409 A 1 HETATM 9 C C5' SAH . . . B 2 3.474 21.18 45.792 1 34.65 ? C5' SAH 409 A 1 HETATM 10 C C4' SAH . . . B 2 2.023 20.962 45.708 1 31.28 ? C4' SAH 409 A 1 HETATM 11 O O4' SAH . . . B 2 1.777 20.038 44.69 1 29.25 ? O4' SAH 409 A 1 HETATM 12 C C3' SAH . . . B 2 1.468 20.381 46.96 1 31.98 ? C3' SAH 409 A 1 HETATM 13 O O3' SAH . . . B 2 0.279 21.069 47.324 1 29.62 ? O3' SAH 409 A 1 HETATM 14 C C2' SAH . . . B 2 1.177 19.036 46.65 1 29.74 ? C2' SAH 409 A 1 HETATM 15 O O2' SAH . . . B 2 0.022 18.564 47.336 1 25.74 ? O2' SAH 409 A 1 HETATM 16 C C1' SAH . . . B 2 0.917 19.071 45.187 1 25.65 ? C1' SAH 409 A 1 HETATM 17 N N9 SAH . . . B 2 1.171 17.797 44.528 1 28.68 ? N9 SAH 409 A 1 HETATM 18 C C8 SAH . . . B 2 2.291 17.062 44.634 1 27.68 ? C8 SAH 409 A 1 HETATM 19 N N7 SAH . . . B 2 2.137 15.974 43.873 1 27.23 ? N7 SAH 409 A 1 HETATM 20 C C5 SAH . . . B 2 0.924 16.018 43.284 1 30.22 ? C5 SAH 409 A 1 HETATM 21 C C6 SAH . . . B 2 0.248 15.174 42.411 1 31.05 ? C6 SAH 409 A 1 HETATM 22 N N6 SAH . . . B 2 0.856 13.96 41.963 1 31.04 ? N6 SAH 409 A 1 HETATM 23 N N1 SAH . . . B 2 -0.98 15.519 41.991 1 28.56 ? N1 SAH 409 A 1 HETATM 24 C C2 SAH . . . B 2 -1.557 16.652 42.41 1 28.49 ? C2 SAH 409 A 1 HETATM 25 N N3 SAH . . . B 2 -0.937 17.489 43.255 1 27.71 ? N3 SAH 409 A 1 HETATM 26 C C4 SAH . . . B 2 0.301 17.196 43.7 1 29.98 ? C4 SAH 409 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 432 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #