data_4GSA # _model_server_result.job_id T-voOcKPqwkMMYODdAkKGQ _model_server_result.datetime_utc '2024-10-30 13:30:43' _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 4gsa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":434}' # _entry.id 4GSA # _exptl.entry_id 4GSA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 4GSA _cell.length_a 68.64 _cell.length_b 108.28 _cell.length_c 122.44 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GSA _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 NZ LYS 272 A LYS 273 1_555 C C4A PLP . A PLP 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.478 ? covale ? covale2 B NZ LYS 272 B LYS 273 1_555 D C4A PLP . B PLP 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 N1 C2 PLP doub 260 n y N1 C6 PLP sing 261 n y C2 C2A PLP sing 262 n n C2 C3 PLP sing 263 n y C2A H2A1 PLP sing 264 n n C2A H2A2 PLP sing 265 n n C2A H2A3 PLP sing 266 n n C3 O3 PLP sing 267 n n C3 C4 PLP doub 268 n y O3 HO3 PLP sing 269 n n C4 C4A PLP sing 270 n n C4 C5 PLP sing 271 n y C4A O4A PLP doub 272 n n C4A H4A PLP sing 273 n n C5 C6 PLP doub 274 n y C5 C5A PLP sing 275 n n C6 H6 PLP sing 276 n n C5A O4P PLP sing 277 n n C5A H5A1 PLP sing 278 n n C5A H5A2 PLP sing 279 n n O4P P PLP sing 280 n n P O1P PLP doub 281 n n P O2P PLP sing 282 n n P O3P PLP sing 283 n n O2P HOP2 PLP sing 284 n n O3P HOP3 PLP sing 285 n n # _atom_sites.entry_id 4GSA _atom_sites.fract_transf_matrix[1][1] 0.014569 _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] 0.009235 _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] 0.008167 _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 PLP A 1 434 273 PLP PLP . D 2 PLP B 1 434 273 PLP PLP . E 3 HOH A 1 2002 2002 HOH HOH . E 3 HOH A 2 2003 2003 HOH HOH . E 3 HOH A 3 2004 2004 HOH HOH . E 3 HOH A 4 2007 2007 HOH HOH . E 3 HOH A 5 2008 2008 HOH HOH . E 3 HOH A 6 2009 2009 HOH HOH . E 3 HOH A 7 2011 2011 HOH HOH . E 3 HOH A 8 2012 2012 HOH HOH . E 3 HOH A 9 2013 2013 HOH HOH . E 3 HOH A 10 2015 2015 HOH HOH . E 3 HOH A 11 2017 2017 HOH HOH . E 3 HOH A 12 2018 2018 HOH HOH . E 3 HOH A 13 2021 2021 HOH HOH . E 3 HOH A 14 2022 2022 HOH HOH . E 3 HOH A 15 2023 2023 HOH HOH . E 3 HOH A 16 2031 2031 HOH HOH . E 3 HOH A 17 2032 2032 HOH HOH . E 3 HOH A 18 2036 2036 HOH HOH . E 3 HOH A 19 2038 2038 HOH HOH . E 3 HOH A 20 2040 2040 HOH HOH . E 3 HOH A 21 2041 2041 HOH HOH . E 3 HOH A 22 2043 2043 HOH HOH . E 3 HOH A 23 2050 2050 HOH HOH . E 3 HOH A 24 2059 2059 HOH HOH . E 3 HOH A 25 2061 2061 HOH HOH . E 3 HOH A 26 2073 2073 HOH HOH . E 3 HOH A 27 2074 2074 HOH HOH . E 3 HOH A 28 2078 2078 HOH HOH . E 3 HOH A 29 2082 2082 HOH HOH . E 3 HOH A 30 2087 2087 HOH HOH . E 3 HOH A 31 2088 2088 HOH HOH . E 3 HOH A 32 2092 2092 HOH HOH . E 3 HOH A 33 2094 2094 HOH HOH . E 3 HOH A 34 2097 2097 HOH HOH . E 3 HOH A 35 2099 2099 HOH HOH . E 3 HOH A 36 2110 2110 HOH HOH . E 3 HOH A 37 2111 2111 HOH HOH . E 3 HOH A 38 2117 2117 HOH HOH . E 3 HOH A 39 2119 2119 HOH HOH . E 3 HOH A 40 2122 2122 HOH HOH . E 3 HOH A 41 2127 2127 HOH HOH . E 3 HOH A 42 2129 2129 HOH HOH . E 3 HOH A 43 2133 2133 HOH HOH . E 3 HOH A 44 2135 2135 HOH HOH . E 3 HOH A 45 2136 2136 HOH HOH . E 3 HOH A 46 2140 2140 HOH HOH . E 3 HOH A 47 2145 2145 HOH HOH . E 3 HOH A 48 2149 2149 HOH HOH . E 3 HOH A 49 2151 2151 HOH HOH . E 3 HOH A 50 2156 2156 HOH HOH . E 3 HOH A 51 2157 2157 HOH HOH . E 3 HOH A 52 2159 2159 HOH HOH . E 3 HOH A 53 2160 2160 HOH HOH . E 3 HOH A 54 2161 2161 HOH HOH . E 3 HOH A 55 2166 2166 HOH HOH . E 3 HOH A 56 2170 2170 HOH HOH . E 3 HOH A 57 2171 2171 HOH HOH . E 3 HOH A 58 2183 2183 HOH HOH . E 3 HOH A 59 2188 2188 HOH HOH . E 3 HOH A 60 2189 2189 HOH HOH . E 3 HOH A 61 2190 2190 HOH HOH . E 3 HOH A 62 2192 2192 HOH HOH . E 3 HOH A 63 2205 2205 HOH HOH . E 3 HOH A 64 2206 2206 HOH HOH . E 3 HOH A 65 2207 2207 HOH HOH . E 3 HOH A 66 2208 2208 HOH HOH . E 3 HOH A 67 2209 2209 HOH HOH . E 3 HOH A 68 2211 2211 HOH HOH . E 3 HOH A 69 2214 2214 HOH HOH . E 3 HOH A 70 2217 2217 HOH HOH . E 3 HOH A 71 2220 2220 HOH HOH . E 3 HOH A 72 2224 2224 HOH HOH . E 3 HOH A 73 2230 2230 HOH HOH . E 3 HOH A 74 2233 2233 HOH HOH . E 3 HOH A 75 2235 2235 HOH HOH . E 3 HOH A 76 2247 2247 HOH HOH . E 3 HOH A 77 2255 2255 HOH HOH . E 3 HOH A 78 2258 2258 HOH HOH . E 3 HOH A 79 2262 2262 HOH HOH . E 3 HOH A 80 2274 2274 HOH HOH . E 3 HOH A 81 2284 2284 HOH HOH . E 3 HOH A 82 2286 2286 HOH HOH . E 3 HOH A 83 2287 2287 HOH HOH . E 3 HOH A 84 2288 2288 HOH HOH . E 3 HOH A 85 2296 2296 HOH HOH . E 3 HOH A 86 2300 2300 HOH HOH . E 3 HOH A 87 2320 2320 HOH HOH . E 3 HOH A 88 2325 2325 HOH HOH . E 3 HOH A 89 2327 2327 HOH HOH . E 3 HOH A 90 2328 2328 HOH HOH . E 3 HOH A 91 2329 2329 HOH HOH . E 3 HOH A 92 2336 2336 HOH HOH . E 3 HOH A 93 2339 2339 HOH HOH . E 3 HOH A 94 2342 2342 HOH HOH . E 3 HOH A 95 2343 2343 HOH HOH . F 3 HOH B 1 2005 2005 HOH HOH . F 3 HOH B 2 2006 2006 HOH HOH . F 3 HOH B 3 2010 2010 HOH HOH . F 3 HOH B 4 2014 2014 HOH HOH . F 3 HOH B 5 2016 2016 HOH HOH . F 3 HOH B 6 2019 2019 HOH HOH . F 3 HOH B 7 2020 2020 HOH HOH . F 3 HOH B 8 2024 2024 HOH HOH . F 3 HOH B 9 2028 2028 HOH HOH . F 3 HOH B 10 2029 2029 HOH HOH . F 3 HOH B 11 2033 2033 HOH HOH . F 3 HOH B 12 2042 2042 HOH HOH . F 3 HOH B 13 2046 2046 HOH HOH . F 3 HOH B 14 2049 2049 HOH HOH . F 3 HOH B 15 2052 2052 HOH HOH . F 3 HOH B 16 2057 2057 HOH HOH . F 3 HOH B 17 2064 2064 HOH HOH . F 3 HOH B 18 2066 2066 HOH HOH . F 3 HOH B 19 2071 2071 HOH HOH . F 3 HOH B 20 2072 2072 HOH HOH . F 3 HOH B 21 2079 2079 HOH HOH . F 3 HOH B 22 2081 2081 HOH HOH . F 3 HOH B 23 2083 2083 HOH HOH . F 3 HOH B 24 2084 2084 HOH HOH . F 3 HOH B 25 2091 2091 HOH HOH . F 3 HOH B 26 2095 2095 HOH HOH . F 3 HOH B 27 2098 2098 HOH HOH . F 3 HOH B 28 2100 2100 HOH HOH . F 3 HOH B 29 2101 2101 HOH HOH . F 3 HOH B 30 2102 2102 HOH HOH . F 3 HOH B 31 2104 2104 HOH HOH . F 3 HOH B 32 2105 2105 HOH HOH . F 3 HOH B 33 2108 2108 HOH HOH . F 3 HOH B 34 2109 2109 HOH HOH . F 3 HOH B 35 2112 2112 HOH HOH . F 3 HOH B 36 2113 2113 HOH HOH . F 3 HOH B 37 2115 2115 HOH HOH . F 3 HOH B 38 2118 2118 HOH HOH . F 3 HOH B 39 2121 2121 HOH HOH . F 3 HOH B 40 2123 2123 HOH HOH . F 3 HOH B 41 2124 2124 HOH HOH . F 3 HOH B 42 2125 2125 HOH HOH . F 3 HOH B 43 2128 2128 HOH HOH . F 3 HOH B 44 2130 2130 HOH HOH . F 3 HOH B 45 2131 2131 HOH HOH . F 3 HOH B 46 2134 2134 HOH HOH . F 3 HOH B 47 2137 2137 HOH HOH . F 3 HOH B 48 2141 2141 HOH HOH . F 3 HOH B 49 2144 2144 HOH HOH . F 3 HOH B 50 2146 2146 HOH HOH . F 3 HOH B 51 2147 2147 HOH HOH . F 3 HOH B 52 2150 2150 HOH HOH . F 3 HOH B 53 2158 2158 HOH HOH . F 3 HOH B 54 2163 2163 HOH HOH . F 3 HOH B 55 2165 2165 HOH HOH . F 3 HOH B 56 2167 2167 HOH HOH . F 3 HOH B 57 2173 2173 HOH HOH . F 3 HOH B 58 2176 2176 HOH HOH . F 3 HOH B 59 2177 2177 HOH HOH . F 3 HOH B 60 2179 2179 HOH HOH . F 3 HOH B 61 2180 2180 HOH HOH . F 3 HOH B 62 2182 2182 HOH HOH . F 3 HOH B 63 2184 2184 HOH HOH . F 3 HOH B 64 2187 2187 HOH HOH . F 3 HOH B 65 2193 2193 HOH HOH . F 3 HOH B 66 2198 2198 HOH HOH . F 3 HOH B 67 2204 2204 HOH HOH . F 3 HOH B 68 2210 2210 HOH HOH . F 3 HOH B 69 2212 2212 HOH HOH . F 3 HOH B 70 2218 2218 HOH HOH . F 3 HOH B 71 2219 2219 HOH HOH . F 3 HOH B 72 2221 2221 HOH HOH . F 3 HOH B 73 2223 2223 HOH HOH . F 3 HOH B 74 2229 2229 HOH HOH . F 3 HOH B 75 2231 2231 HOH HOH . F 3 HOH B 76 2234 2234 HOH HOH . F 3 HOH B 77 2239 2239 HOH HOH . F 3 HOH B 78 2245 2245 HOH HOH . F 3 HOH B 79 2246 2246 HOH HOH . F 3 HOH B 80 2251 2251 HOH HOH . F 3 HOH B 81 2253 2253 HOH HOH . F 3 HOH B 82 2256 2256 HOH HOH . F 3 HOH B 83 2259 2259 HOH HOH . F 3 HOH B 84 2263 2263 HOH HOH . F 3 HOH B 85 2269 2269 HOH HOH . F 3 HOH B 86 2285 2285 HOH HOH . F 3 HOH B 87 2293 2293 HOH HOH . F 3 HOH B 88 2297 2297 HOH HOH . F 3 HOH B 89 2313 2313 HOH HOH . F 3 HOH B 90 2314 2314 HOH HOH . F 3 HOH B 91 2324 2324 HOH HOH . F 3 HOH B 92 2326 2326 HOH HOH . F 3 HOH B 93 2337 2337 HOH HOH . F 3 HOH B 94 2340 2340 HOH HOH . F 3 HOH B 95 2341 2341 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 N1 PLP . . . D 2 13.338 10.808 -13.2 1 20.37 ? N1 PLP 434 B 1 HETATM 2 C C2 PLP . . . D 2 13.03 10.724 -11.897 1 18.11 ? C2 PLP 434 B 1 HETATM 3 C C2A PLP . . . D 2 14.126 10.383 -10.962 1 12.62 ? C2A PLP 434 B 1 HETATM 4 C C3 PLP . . . D 2 11.735 10.961 -11.452 1 22.29 ? C3 PLP 434 B 1 HETATM 5 O O3 PLP . . . D 2 11.438 11.062 -10.106 1 25.44 ? O3 PLP 434 B 1 HETATM 6 C C4 PLP . . . D 2 10.752 11.28 -12.363 1 22.9 ? C4 PLP 434 B 1 HETATM 7 C C4A PLP . . . D 2 9.407 11.642 -11.797 1 20.57 ? C4A PLP 434 B 1 HETATM 8 C C5 PLP . . . D 2 11.039 11.31 -13.728 1 21.24 ? C5 PLP 434 B 1 HETATM 9 C C6 PLP . . . D 2 12.333 11.074 -14.11 1 22.09 ? C6 PLP 434 B 1 HETATM 10 C C5A PLP . . . D 2 9.995 11.638 -14.825 1 23.95 ? C5A PLP 434 B 1 HETATM 11 O O4P PLP . . . D 2 9.673 13.052 -14.997 1 15.95 ? O4P PLP 434 B 1 HETATM 12 P P PLP . . . D 2 8.145 13.432 -15.305 1 23.92 ? P PLP 434 B 1 HETATM 13 O O1P PLP . . . D 2 7.997 14.858 -15.053 1 29.31 ? O1P PLP 434 B 1 HETATM 14 O O2P PLP . . . D 2 8.398 13.188 -16.843 1 17.32 ? O2P PLP 434 B 1 HETATM 15 O O3P PLP . . . D 2 7.178 12.446 -14.766 1 32.18 ? O3P PLP 434 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 15 #