data_2YA2 # _model_server_result.job_id My9HwCbxv5rPQzBPNI6l9Q _model_server_result.datetime_utc '2024-12-22 06:14:45' _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 2ya2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 2YA2 # _exptl.entry_id 2YA2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 40.078 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'CALCIUM ION' _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 97.72 _cell.angle_gamma 90 _cell.entry_id 2YA2 _cell.length_a 57.779 _cell.length_b 75.803 _cell.length_c 88.089 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YA2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 NOJ _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NOJ 1 B 1 NOJ A 1689 NOJ 2 n B GLC 2 B 2 GLC A 1690 GLC # 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 B O4 NOJ . B NOJ 1 1_555 B C1 GLC . B GLC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? metalc ? metalc1 A O MET 393 A MET 373 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? metalc ? metalc2 A O THR 396 A THR 376 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc3 A OD1 ASP 397 A ASP 377 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 A OD1 ASP 447 A ASP 427 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc5 A OD1 ASP 451 A ASP 431 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc6 A OD2 ASP 451 A ASP 431 1_555 C CA CA . A CA 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc7 C CA CA . A CA 701 1_555 E O HOH . A HOH 2245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc8 D NA NA . A NA 702 1_555 E O HOH . A HOH 2292 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.068 ? metalc ? metalc9 D NA NA . A NA 702 1_555 E O HOH . A HOH 2302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.197 ? metalc ? metalc10 D NA NA . A NA 702 1_555 E O HOH . A HOH 2342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.149 ? # _chem_comp.formula 'Ca 2' _chem_comp.formula_weight 40.078 _chem_comp.id CA _chem_comp.mon_nstd_flag . _chem_comp.name 'CALCIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 2YA2 _atom_sites.fract_transf_matrix[1][1] 0.017307 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002346 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013192 _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] 0.011456 _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 3 CA A 1 701 1691 CA CA . D 4 NA A 1 702 1692 NA NA . E 5 HOH A 1 2201 2201 HOH HOH . E 5 HOH A 2 2202 2104 HOH HOH . E 5 HOH A 3 2203 2074 HOH HOH . E 5 HOH A 4 2204 2137 HOH HOH . E 5 HOH A 5 2205 2185 HOH HOH . E 5 HOH A 6 2206 2053 HOH HOH . E 5 HOH A 7 2207 2019 HOH HOH . E 5 HOH A 8 2208 2113 HOH HOH . E 5 HOH A 9 2209 2036 HOH HOH . E 5 HOH A 10 2210 2084 HOH HOH . E 5 HOH A 11 2211 2029 HOH HOH . E 5 HOH A 12 2212 2080 HOH HOH . E 5 HOH A 13 2213 2126 HOH HOH . E 5 HOH A 14 2214 2162 HOH HOH . E 5 HOH A 15 2215 2196 HOH HOH . E 5 HOH A 16 2216 2187 HOH HOH . E 5 HOH A 17 2217 2083 HOH HOH . E 5 HOH A 18 2218 2138 HOH HOH . E 5 HOH A 19 2219 2043 HOH HOH . E 5 HOH A 20 2220 2200 HOH HOH . E 5 HOH A 21 2221 2091 HOH HOH . E 5 HOH A 22 2222 2035 HOH HOH . E 5 HOH A 23 2223 2184 HOH HOH . E 5 HOH A 24 2224 2046 HOH HOH . E 5 HOH A 25 2225 2031 HOH HOH . E 5 HOH A 26 2226 2057 HOH HOH . E 5 HOH A 27 2227 2098 HOH HOH . E 5 HOH A 28 2228 2092 HOH HOH . E 5 HOH A 29 2229 2011 HOH HOH . E 5 HOH A 30 2230 2030 HOH HOH . E 5 HOH A 31 2231 2197 HOH HOH . E 5 HOH A 32 2232 2055 HOH HOH . E 5 HOH A 33 2233 2042 HOH HOH . E 5 HOH A 34 2234 2165 HOH HOH . E 5 HOH A 35 2235 2121 HOH HOH . E 5 HOH A 36 2236 2192 HOH HOH . E 5 HOH A 37 2237 2087 HOH HOH . E 5 HOH A 38 2238 2151 HOH HOH . E 5 HOH A 39 2239 2044 HOH HOH . E 5 HOH A 40 2240 2007 HOH HOH . E 5 HOH A 41 2241 2022 HOH HOH . E 5 HOH A 42 2242 2120 HOH HOH . E 5 HOH A 43 2243 2108 HOH HOH . E 5 HOH A 44 2244 2118 HOH HOH . E 5 HOH A 45 2245 2148 HOH HOH . E 5 HOH A 46 2246 2093 HOH HOH . E 5 HOH A 47 2247 2191 HOH HOH . E 5 HOH A 48 2248 2152 HOH HOH . E 5 HOH A 49 2249 2186 HOH HOH . E 5 HOH A 50 2250 2180 HOH HOH . E 5 HOH A 51 2251 2015 HOH HOH . E 5 HOH A 52 2252 2082 HOH HOH . E 5 HOH A 53 2253 2156 HOH HOH . E 5 HOH A 54 2254 2066 HOH HOH . E 5 HOH A 55 2255 2183 HOH HOH . E 5 HOH A 56 2256 2161 HOH HOH . E 5 HOH A 57 2257 2147 HOH HOH . E 5 HOH A 58 2258 2163 HOH HOH . E 5 HOH A 59 2259 2131 HOH HOH . E 5 HOH A 60 2260 2170 HOH HOH . E 5 HOH A 61 2261 2202 HOH HOH . E 5 HOH A 62 2262 2076 HOH HOH . E 5 HOH A 63 2263 2139 HOH HOH . E 5 HOH A 64 2264 2171 HOH HOH . E 5 HOH A 65 2265 2018 HOH HOH . E 5 HOH A 66 2266 2052 HOH HOH . E 5 HOH A 67 2267 2106 HOH HOH . E 5 HOH A 68 2268 2111 HOH HOH . E 5 HOH A 69 2269 2054 HOH HOH . E 5 HOH A 70 2270 2125 HOH HOH . E 5 HOH A 71 2271 2049 HOH HOH . E 5 HOH A 72 2272 2172 HOH HOH . E 5 HOH A 73 2273 2099 HOH HOH . E 5 HOH A 74 2274 2034 HOH HOH . E 5 HOH A 75 2275 2045 HOH HOH . E 5 HOH A 76 2276 2032 HOH HOH . E 5 HOH A 77 2277 2122 HOH HOH . E 5 HOH A 78 2278 2070 HOH HOH . E 5 HOH A 79 2279 2127 HOH HOH . E 5 HOH A 80 2280 2039 HOH HOH . E 5 HOH A 81 2281 2119 HOH HOH . E 5 HOH A 82 2282 2040 HOH HOH . E 5 HOH A 83 2283 2168 HOH HOH . E 5 HOH A 84 2284 2146 HOH HOH . E 5 HOH A 85 2285 2130 HOH HOH . E 5 HOH A 86 2286 2089 HOH HOH . E 5 HOH A 87 2287 2081 HOH HOH . E 5 HOH A 88 2288 2012 HOH HOH . E 5 HOH A 89 2289 2077 HOH HOH . E 5 HOH A 90 2290 2143 HOH HOH . E 5 HOH A 91 2291 2079 HOH HOH . E 5 HOH A 92 2292 2157 HOH HOH . E 5 HOH A 93 2293 2048 HOH HOH . E 5 HOH A 94 2294 2181 HOH HOH . E 5 HOH A 95 2295 2182 HOH HOH . E 5 HOH A 96 2296 2116 HOH HOH . E 5 HOH A 97 2297 2095 HOH HOH . E 5 HOH A 98 2298 2110 HOH HOH . E 5 HOH A 99 2299 2096 HOH HOH . E 5 HOH A 100 2300 2021 HOH HOH . E 5 HOH A 101 2301 2017 HOH HOH . E 5 HOH A 102 2302 2154 HOH HOH . E 5 HOH A 103 2303 2198 HOH HOH . E 5 HOH A 104 2304 2132 HOH HOH . E 5 HOH A 105 2305 2090 HOH HOH . E 5 HOH A 106 2306 2150 HOH HOH . E 5 HOH A 107 2307 2100 HOH HOH . E 5 HOH A 108 2308 2149 HOH HOH . E 5 HOH A 109 2309 2038 HOH HOH . E 5 HOH A 110 2310 2109 HOH HOH . E 5 HOH A 111 2311 2075 HOH HOH . E 5 HOH A 112 2312 2193 HOH HOH . E 5 HOH A 113 2313 2189 HOH HOH . E 5 HOH A 114 2314 2025 HOH HOH . E 5 HOH A 115 2315 2037 HOH HOH . E 5 HOH A 116 2316 2063 HOH HOH . E 5 HOH A 117 2317 2101 HOH HOH . E 5 HOH A 118 2318 2103 HOH HOH . E 5 HOH A 119 2319 2105 HOH HOH . E 5 HOH A 120 2320 2028 HOH HOH . E 5 HOH A 121 2321 2160 HOH HOH . E 5 HOH A 122 2322 2094 HOH HOH . E 5 HOH A 123 2323 2190 HOH HOH . E 5 HOH A 124 2324 2124 HOH HOH . E 5 HOH A 125 2325 2078 HOH HOH . E 5 HOH A 126 2326 2166 HOH HOH . E 5 HOH A 127 2327 2141 HOH HOH . E 5 HOH A 128 2328 2176 HOH HOH . E 5 HOH A 129 2329 2056 HOH HOH . E 5 HOH A 130 2330 2020 HOH HOH . E 5 HOH A 131 2331 2097 HOH HOH . E 5 HOH A 132 2332 2178 HOH HOH . E 5 HOH A 133 2333 2169 HOH HOH . E 5 HOH A 134 2334 2014 HOH HOH . E 5 HOH A 135 2335 2179 HOH HOH . E 5 HOH A 136 2336 2002 HOH HOH . E 5 HOH A 137 2337 2005 HOH HOH . E 5 HOH A 138 2338 2167 HOH HOH . E 5 HOH A 139 2339 2060 HOH HOH . E 5 HOH A 140 2340 2008 HOH HOH . E 5 HOH A 141 2341 2047 HOH HOH . E 5 HOH A 142 2342 2135 HOH HOH . E 5 HOH A 143 2343 2088 HOH HOH . E 5 HOH A 144 2344 2061 HOH HOH . E 5 HOH A 145 2345 2164 HOH HOH . E 5 HOH A 146 2346 2065 HOH HOH . E 5 HOH A 147 2347 2058 HOH HOH . E 5 HOH A 148 2348 2051 HOH HOH . E 5 HOH A 149 2349 2041 HOH HOH . E 5 HOH A 150 2350 2013 HOH HOH . E 5 HOH A 151 2351 2117 HOH HOH . E 5 HOH A 152 2352 2199 HOH HOH . E 5 HOH A 153 2353 2068 HOH HOH . E 5 HOH A 154 2354 2159 HOH HOH . E 5 HOH A 155 2355 2203 HOH HOH . E 5 HOH A 156 2356 2112 HOH HOH . E 5 HOH A 157 2357 2072 HOH HOH . E 5 HOH A 158 2358 2133 HOH HOH . E 5 HOH A 159 2359 2003 HOH HOH . E 5 HOH A 160 2360 2123 HOH HOH . E 5 HOH A 161 2361 2195 HOH HOH . E 5 HOH A 162 2362 2071 HOH HOH . E 5 HOH A 163 2363 2073 HOH HOH . E 5 HOH A 164 2364 2062 HOH HOH . E 5 HOH A 165 2365 2205 HOH HOH . E 5 HOH A 166 2366 2175 HOH HOH . E 5 HOH A 167 2367 2027 HOH HOH . E 5 HOH A 168 2368 2145 HOH HOH . E 5 HOH A 169 2369 2128 HOH HOH . E 5 HOH A 170 2370 2194 HOH HOH . E 5 HOH A 171 2371 2085 HOH HOH . E 5 HOH A 172 2372 2188 HOH HOH . E 5 HOH A 173 2373 2142 HOH HOH . E 5 HOH A 174 2374 2001 HOH HOH . E 5 HOH A 175 2375 2174 HOH HOH . E 5 HOH A 176 2376 2153 HOH HOH . E 5 HOH A 177 2377 2024 HOH HOH . E 5 HOH A 178 2378 2204 HOH HOH . E 5 HOH A 179 2379 2173 HOH HOH . E 5 HOH A 180 2380 2155 HOH HOH . E 5 HOH A 181 2381 2023 HOH HOH . E 5 HOH A 182 2382 2115 HOH HOH . E 5 HOH A 183 2383 2177 HOH HOH . E 5 HOH A 184 2384 2114 HOH HOH . E 5 HOH A 185 2385 2069 HOH HOH . E 5 HOH A 186 2386 2086 HOH HOH . E 5 HOH A 187 2387 2064 HOH HOH . E 5 HOH A 188 2388 2016 HOH HOH . E 5 HOH A 189 2389 2102 HOH HOH . E 5 HOH A 190 2390 2136 HOH HOH . E 5 HOH A 191 2391 2107 HOH HOH . E 5 HOH A 192 2392 2067 HOH HOH . E 5 HOH A 193 2393 2129 HOH HOH . E 5 HOH A 194 2394 2144 HOH HOH . E 5 HOH A 195 2395 2006 HOH HOH . E 5 HOH A 196 2396 2059 HOH HOH . E 5 HOH A 197 2397 2134 HOH HOH . E 5 HOH A 198 2398 2158 HOH HOH . E 5 HOH A 199 2399 2140 HOH HOH . E 5 HOH A 200 2400 2026 HOH HOH . E 5 HOH A 201 2401 2033 HOH HOH . E 5 HOH A 202 2402 2206 HOH HOH . E 5 HOH A 203 2403 2004 HOH HOH . E 5 HOH A 204 2404 2009 HOH HOH . E 5 HOH A 205 2405 2050 HOH HOH . E 5 HOH A 206 2406 2010 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol CA _atom_site.label_atom_id CA _atom_site.label_comp_id CA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id C _atom_site.label_entity_id 3 _atom_site.Cartn_x 27.014 _atom_site.Cartn_y 12.977 _atom_site.Cartn_z 4.056 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 23.44 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id CA _atom_site.auth_comp_id CA _atom_site.auth_seq_id 701 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 1 #