data_2YVF # _model_server_result.job_id Onmc88zGEuzjE69X_dQWxQ _model_server_result.datetime_utc '2024-11-06 00:44:26' _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 2yvf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":2005}' # _entry.id 2YVF # _exptl.entry_id 2YVF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 46.025 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FORMIC ACID' _entity.pdbx_number_of_molecules 5 _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 2YVF _cell.length_a 97.597 _cell.length_b 97.597 _cell.length_c 169.463 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YVF _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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' 12_555 x,x-y,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 28.243833 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N # _chem_comp.formula 'C H2 O2' _chem_comp.formula_weight 46.025 _chem_comp.id FMT _chem_comp.mon_nstd_flag . _chem_comp.name 'FORMIC ACID' _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 C O1 FMT doub 174 n n C O2 FMT sing 175 n n C H FMT sing 176 n n O2 HO2 FMT sing 177 n n # _atom_sites.entry_id 2YVF _atom_sites.fract_transf_matrix[1][1] 0.010246 _atom_sites.fract_transf_matrix[1][2] 0.005916 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011831 _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] 0.005901 _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 FAD A 1 1449 1449 FAD FAD . C 3 NAD A 1 1500 1500 NAD NAD . D 4 FMT A 1 2001 2001 FMT FMT . E 4 FMT A 1 2002 2002 FMT FMT . F 4 FMT A 1 2003 2003 FMT FMT . G 4 FMT A 1 2004 2004 FMT FMT . H 4 FMT A 1 2005 2005 FMT FMT . I 5 HOH A 1 2006 1 HOH HOH . I 5 HOH A 2 2007 2 HOH HOH . I 5 HOH A 3 2008 3 HOH HOH . I 5 HOH A 4 2009 4 HOH HOH . I 5 HOH A 5 2010 5 HOH HOH . I 5 HOH A 6 2011 6 HOH HOH . I 5 HOH A 7 2012 7 HOH HOH . I 5 HOH A 8 2013 8 HOH HOH . I 5 HOH A 9 2014 9 HOH HOH . I 5 HOH A 10 2015 10 HOH HOH . I 5 HOH A 11 2016 11 HOH HOH . I 5 HOH A 12 2017 12 HOH HOH . I 5 HOH A 13 2018 13 HOH HOH . I 5 HOH A 14 2019 14 HOH HOH . I 5 HOH A 15 2020 15 HOH HOH . I 5 HOH A 16 2021 17 HOH HOH . I 5 HOH A 17 2022 18 HOH HOH . I 5 HOH A 18 2023 19 HOH HOH . I 5 HOH A 19 2024 20 HOH HOH . I 5 HOH A 20 2025 21 HOH HOH . I 5 HOH A 21 2026 22 HOH HOH . I 5 HOH A 22 2027 23 HOH HOH . I 5 HOH A 23 2028 24 HOH HOH . I 5 HOH A 24 2029 25 HOH HOH . I 5 HOH A 25 2030 27 HOH HOH . I 5 HOH A 26 2031 28 HOH HOH . I 5 HOH A 27 2032 29 HOH HOH . I 5 HOH A 28 2033 30 HOH HOH . I 5 HOH A 29 2034 33 HOH HOH . I 5 HOH A 30 2035 35 HOH HOH . I 5 HOH A 31 2036 36 HOH HOH . I 5 HOH A 32 2037 37 HOH HOH . I 5 HOH A 33 2038 38 HOH HOH . I 5 HOH A 34 2039 39 HOH HOH . I 5 HOH A 35 2040 40 HOH HOH . I 5 HOH A 36 2041 41 HOH HOH . I 5 HOH A 37 2042 42 HOH HOH . I 5 HOH A 38 2043 43 HOH HOH . I 5 HOH A 39 2044 44 HOH HOH . I 5 HOH A 40 2045 45 HOH HOH . I 5 HOH A 41 2046 46 HOH HOH . I 5 HOH A 42 2047 47 HOH HOH . I 5 HOH A 43 2048 48 HOH HOH . I 5 HOH A 44 2049 51 HOH HOH . I 5 HOH A 45 2050 52 HOH HOH . I 5 HOH A 46 2051 53 HOH HOH . I 5 HOH A 47 2052 55 HOH HOH . I 5 HOH A 48 2053 56 HOH HOH . I 5 HOH A 49 2054 57 HOH HOH . I 5 HOH A 50 2055 59 HOH HOH . I 5 HOH A 51 2056 61 HOH HOH . I 5 HOH A 52 2057 62 HOH HOH . I 5 HOH A 53 2058 63 HOH HOH . I 5 HOH A 54 2059 64 HOH HOH . I 5 HOH A 55 2060 65 HOH HOH . I 5 HOH A 56 2061 67 HOH HOH . I 5 HOH A 57 2062 69 HOH HOH . I 5 HOH A 58 2063 70 HOH HOH . I 5 HOH A 59 2064 73 HOH HOH . I 5 HOH A 60 2065 74 HOH HOH . I 5 HOH A 61 2066 80 HOH HOH . I 5 HOH A 62 2067 81 HOH HOH . I 5 HOH A 63 2068 82 HOH HOH . I 5 HOH A 64 2069 83 HOH HOH . I 5 HOH A 65 2070 84 HOH HOH . I 5 HOH A 66 2071 85 HOH HOH . I 5 HOH A 67 2072 86 HOH HOH . I 5 HOH A 68 2073 87 HOH HOH . I 5 HOH A 69 2074 89 HOH HOH . I 5 HOH A 70 2075 90 HOH HOH . I 5 HOH A 71 2076 94 HOH HOH . I 5 HOH A 72 2077 95 HOH HOH . I 5 HOH A 73 2078 96 HOH HOH . I 5 HOH A 74 2079 99 HOH HOH . I 5 HOH A 75 2080 100 HOH HOH . I 5 HOH A 76 2081 101 HOH HOH . I 5 HOH A 77 2082 103 HOH HOH . I 5 HOH A 78 2083 105 HOH HOH . I 5 HOH A 79 2084 106 HOH HOH . I 5 HOH A 80 2085 107 HOH HOH . I 5 HOH A 81 2086 108 HOH HOH . I 5 HOH A 82 2087 109 HOH HOH . I 5 HOH A 83 2088 112 HOH HOH . I 5 HOH A 84 2089 114 HOH HOH . I 5 HOH A 85 2090 115 HOH HOH . I 5 HOH A 86 2091 117 HOH HOH . I 5 HOH A 87 2092 120 HOH HOH . I 5 HOH A 88 2093 124 HOH HOH . I 5 HOH A 89 2094 125 HOH HOH . I 5 HOH A 90 2095 127 HOH HOH . I 5 HOH A 91 2096 130 HOH HOH . I 5 HOH A 92 2097 131 HOH HOH . I 5 HOH A 93 2098 133 HOH HOH . I 5 HOH A 94 2099 134 HOH HOH . I 5 HOH A 95 2100 138 HOH HOH . I 5 HOH A 96 2101 139 HOH HOH . I 5 HOH A 97 2102 140 HOH HOH . I 5 HOH A 98 2103 141 HOH HOH . I 5 HOH A 99 2104 142 HOH HOH . I 5 HOH A 100 2105 143 HOH HOH . I 5 HOH A 101 2106 144 HOH HOH . I 5 HOH A 102 2107 145 HOH HOH . I 5 HOH A 103 2108 146 HOH HOH . I 5 HOH A 104 2109 147 HOH HOH . I 5 HOH A 105 2110 148 HOH HOH . I 5 HOH A 106 2111 149 HOH HOH . I 5 HOH A 107 2112 150 HOH HOH . I 5 HOH A 108 2113 151 HOH HOH . I 5 HOH A 109 2114 156 HOH HOH . I 5 HOH A 110 2115 158 HOH HOH . I 5 HOH A 111 2116 161 HOH HOH . I 5 HOH A 112 2117 163 HOH HOH . I 5 HOH A 113 2118 164 HOH HOH . I 5 HOH A 114 2119 168 HOH HOH . I 5 HOH A 115 2120 170 HOH HOH . I 5 HOH A 116 2121 172 HOH HOH . I 5 HOH A 117 2122 179 HOH HOH . I 5 HOH A 118 2123 181 HOH HOH . I 5 HOH A 119 2124 182 HOH HOH . I 5 HOH A 120 2125 183 HOH HOH . I 5 HOH A 121 2126 185 HOH HOH . I 5 HOH A 122 2127 186 HOH HOH . I 5 HOH A 123 2128 188 HOH HOH . I 5 HOH A 124 2129 190 HOH HOH . I 5 HOH A 125 2130 194 HOH HOH . I 5 HOH A 126 2131 195 HOH HOH . I 5 HOH A 127 2132 197 HOH HOH . I 5 HOH A 128 2133 200 HOH HOH . I 5 HOH A 129 2134 201 HOH HOH . I 5 HOH A 130 2135 205 HOH HOH . I 5 HOH A 131 2136 207 HOH HOH . I 5 HOH A 132 2137 210 HOH HOH . I 5 HOH A 133 2138 213 HOH HOH . I 5 HOH A 134 2139 218 HOH HOH . I 5 HOH A 135 2140 231 HOH HOH . I 5 HOH A 136 2141 232 HOH HOH . I 5 HOH A 137 2142 234 HOH HOH . I 5 HOH A 138 2143 237 HOH HOH . I 5 HOH A 139 2144 238 HOH HOH . I 5 HOH A 140 2145 240 HOH HOH . I 5 HOH A 141 2146 243 HOH HOH . I 5 HOH A 142 2147 244 HOH HOH . I 5 HOH A 143 2148 245 HOH HOH . I 5 HOH A 144 2149 250 HOH HOH . I 5 HOH A 145 2150 254 HOH HOH . I 5 HOH A 146 2151 257 HOH HOH . I 5 HOH A 147 2152 259 HOH HOH . I 5 HOH A 148 2153 260 HOH HOH . I 5 HOH A 149 2154 268 HOH HOH . I 5 HOH A 150 2155 269 HOH HOH . I 5 HOH A 151 2156 270 HOH HOH . I 5 HOH A 152 2157 272 HOH HOH . I 5 HOH A 153 2158 273 HOH HOH . I 5 HOH A 154 2159 276 HOH HOH . I 5 HOH A 155 2160 279 HOH HOH . I 5 HOH A 156 2161 282 HOH HOH . I 5 HOH A 157 2162 287 HOH HOH . I 5 HOH A 158 2163 288 HOH HOH . I 5 HOH A 159 2164 290 HOH HOH . I 5 HOH A 160 2165 291 HOH HOH . I 5 HOH A 161 2166 293 HOH HOH . I 5 HOH A 162 2167 301 HOH HOH . I 5 HOH A 163 2168 315 HOH HOH . I 5 HOH A 164 2169 328 HOH HOH . I 5 HOH A 165 2170 338 HOH HOH . I 5 HOH A 166 2171 365 HOH HOH . I 5 HOH A 167 2172 386 HOH HOH . I 5 HOH A 168 2173 404 HOH HOH . I 5 HOH A 169 2174 413 HOH HOH . I 5 HOH A 170 2175 418 HOH HOH . I 5 HOH A 171 2176 432 HOH HOH . I 5 HOH A 172 2177 433 HOH HOH . I 5 HOH A 173 2178 564 HOH HOH . I 5 HOH A 174 2179 603 HOH HOH . I 5 HOH A 175 2180 605 HOH HOH . I 5 HOH A 176 2181 606 HOH HOH . I 5 HOH A 177 2182 623 HOH HOH . I 5 HOH A 178 2183 629 HOH HOH . I 5 HOH A 179 2184 632 HOH HOH . I 5 HOH A 180 2185 634 HOH HOH . I 5 HOH A 181 2186 635 HOH HOH . I 5 HOH A 182 2187 636 HOH HOH . I 5 HOH A 183 2188 637 HOH HOH . I 5 HOH A 184 2189 638 HOH HOH . I 5 HOH A 185 2190 639 HOH HOH . I 5 HOH A 186 2191 641 HOH HOH . I 5 HOH A 187 2192 642 HOH HOH . I 5 HOH A 188 2193 643 HOH HOH . I 5 HOH A 189 2194 644 HOH HOH . I 5 HOH A 190 2195 645 HOH HOH . I 5 HOH A 191 2196 646 HOH HOH . I 5 HOH A 192 2197 647 HOH HOH . I 5 HOH A 193 2198 650 HOH HOH . I 5 HOH A 194 2199 667 HOH HOH . I 5 HOH A 195 2200 669 HOH HOH . I 5 HOH A 196 2201 670 HOH HOH . I 5 HOH A 197 2202 671 HOH HOH . I 5 HOH A 198 2203 675 HOH HOH . I 5 HOH A 199 2204 678 HOH HOH . I 5 HOH A 200 2205 682 HOH HOH . I 5 HOH A 201 2206 683 HOH HOH . I 5 HOH A 202 2207 684 HOH HOH . I 5 HOH A 203 2208 687 HOH HOH . I 5 HOH A 204 2209 688 HOH HOH . I 5 HOH A 205 2210 689 HOH HOH . I 5 HOH A 206 2211 705 HOH HOH . I 5 HOH A 207 2212 710 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 C FMT . . . H 4 72.677 21.17 -2.444 1 48.05 ? C FMT 2005 A 1 HETATM 2 O O1 FMT . . . H 4 72.183 20.443 -3.307 1 48.36 ? O1 FMT 2005 A 1 HETATM 3 O O2 FMT . . . H 4 72.598 22.396 -2.466 1 47.6 ? O2 FMT 2005 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 3 #