data_5XBF # _model_server_result.job_id phu1rvfgpF0pRmvhz1tT_Q _model_server_result.datetime_utc '2024-11-21 23:07:23' _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 5xbf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2203}' # _entry.id 5XBF # _exptl.entry_id 5XBF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 134.087 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description D-MALATE _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 97.51 _cell.angle_gamma 90 _cell.entry_id 5XBF _cell.length_a 69.634 _cell.length_b 42.537 _cell.length_c 118.39 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XBF _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 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 _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 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C4 H6 O5' _chem_comp.formula_weight 134.087 _chem_comp.id MLT _chem_comp.mon_nstd_flag . _chem_comp.name D-MALATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(2R)-2-HYDROXYBUTANEDIOIC ACID;2-HYDROXY-SUCCINIC ACID' # 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 O1 MLT doub 256 n n C1 O2 MLT sing 257 n n C1 C2 MLT sing 258 n n C2 O3 MLT sing 259 n n C2 C3 MLT sing 260 n n C2 H2 MLT sing 261 n n O3 HO3 MLT sing 262 n n C3 C4 MLT sing 263 n n C3 H31 MLT sing 264 n n C3 H32 MLT sing 265 n n C4 O4 MLT doub 266 n n C4 O5 MLT sing 267 n n O5 HO5 MLT sing 268 n n O2 H6 MLT sing 269 n n # _atom_sites.entry_id 5XBF _atom_sites.fract_transf_matrix[1][1] 0.014361 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001892 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023509 _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] 0.00852 _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 GOL A 1 2201 2 GOL GOL . D 3 GOL A 1 2202 3 GOL GOL . E 4 MLT A 1 2203 2 MLT MLT . F 5 ACT A 1 2204 1 ACT ACT . G 3 GOL B 1 601 1 GOL GOL . H 6 HOH A 1 2301 276 HOH HOH . H 6 HOH A 2 2302 256 HOH HOH . H 6 HOH A 3 2303 225 HOH HOH . H 6 HOH A 4 2304 234 HOH HOH . H 6 HOH A 5 2305 47 HOH HOH . H 6 HOH A 6 2306 287 HOH HOH . H 6 HOH A 7 2307 316 HOH HOH . H 6 HOH A 8 2308 297 HOH HOH . H 6 HOH A 9 2309 80 HOH HOH . H 6 HOH A 10 2310 250 HOH HOH . H 6 HOH A 11 2311 89 HOH HOH . H 6 HOH A 12 2312 209 HOH HOH . H 6 HOH A 13 2313 120 HOH HOH . H 6 HOH A 14 2314 83 HOH HOH . H 6 HOH A 15 2315 291 HOH HOH . H 6 HOH A 16 2316 221 HOH HOH . H 6 HOH A 17 2317 56 HOH HOH . H 6 HOH A 18 2318 318 HOH HOH . H 6 HOH A 19 2319 105 HOH HOH . H 6 HOH A 20 2320 238 HOH HOH . H 6 HOH A 21 2321 98 HOH HOH . H 6 HOH A 22 2322 93 HOH HOH . H 6 HOH A 23 2323 300 HOH HOH . H 6 HOH A 24 2324 260 HOH HOH . H 6 HOH A 25 2325 245 HOH HOH . H 6 HOH A 26 2326 220 HOH HOH . H 6 HOH A 27 2327 246 HOH HOH . H 6 HOH A 28 2328 304 HOH HOH . H 6 HOH A 29 2329 310 HOH HOH . H 6 HOH A 30 2330 96 HOH HOH . H 6 HOH A 31 2331 5 HOH HOH . H 6 HOH A 32 2332 161 HOH HOH . H 6 HOH A 33 2333 55 HOH HOH . H 6 HOH A 34 2334 1 HOH HOH . H 6 HOH A 35 2335 107 HOH HOH . H 6 HOH A 36 2336 315 HOH HOH . H 6 HOH A 37 2337 74 HOH HOH . H 6 HOH A 38 2338 235 HOH HOH . H 6 HOH A 39 2339 79 HOH HOH . H 6 HOH A 40 2340 217 HOH HOH . H 6 HOH A 41 2341 224 HOH HOH . H 6 HOH A 42 2342 155 HOH HOH . H 6 HOH A 43 2343 31 HOH HOH . H 6 HOH A 44 2344 3 HOH HOH . H 6 HOH A 45 2345 196 HOH HOH . H 6 HOH A 46 2346 208 HOH HOH . H 6 HOH A 47 2347 39 HOH HOH . H 6 HOH A 48 2348 306 HOH HOH . H 6 HOH A 49 2349 43 HOH HOH . H 6 HOH A 50 2350 38 HOH HOH . H 6 HOH A 51 2351 27 HOH HOH . H 6 HOH A 52 2352 139 HOH HOH . H 6 HOH A 53 2353 301 HOH HOH . H 6 HOH A 54 2354 191 HOH HOH . H 6 HOH A 55 2355 78 HOH HOH . H 6 HOH A 56 2356 48 HOH HOH . H 6 HOH A 57 2357 218 HOH HOH . H 6 HOH A 58 2358 129 HOH HOH . H 6 HOH A 59 2359 284 HOH HOH . H 6 HOH A 60 2360 15 HOH HOH . H 6 HOH A 61 2361 64 HOH HOH . H 6 HOH A 62 2362 317 HOH HOH . H 6 HOH A 63 2363 236 HOH HOH . H 6 HOH A 64 2364 322 HOH HOH . H 6 HOH A 65 2365 282 HOH HOH . H 6 HOH A 66 2366 189 HOH HOH . H 6 HOH A 67 2367 14 HOH HOH . H 6 HOH A 68 2368 24 HOH HOH . H 6 HOH A 69 2369 147 HOH HOH . H 6 HOH A 70 2370 116 HOH HOH . H 6 HOH A 71 2371 146 HOH HOH . H 6 HOH A 72 2372 222 HOH HOH . H 6 HOH A 73 2373 193 HOH HOH . H 6 HOH A 74 2374 103 HOH HOH . H 6 HOH A 75 2375 4 HOH HOH . H 6 HOH A 76 2376 198 HOH HOH . H 6 HOH A 77 2377 188 HOH HOH . H 6 HOH A 78 2378 177 HOH HOH . H 6 HOH A 79 2379 133 HOH HOH . H 6 HOH A 80 2380 212 HOH HOH . H 6 HOH A 81 2381 33 HOH HOH . H 6 HOH A 82 2382 11 HOH HOH . H 6 HOH A 83 2383 123 HOH HOH . H 6 HOH A 84 2384 82 HOH HOH . H 6 HOH A 85 2385 216 HOH HOH . H 6 HOH A 86 2386 69 HOH HOH . H 6 HOH A 87 2387 70 HOH HOH . H 6 HOH A 88 2388 44 HOH HOH . H 6 HOH A 89 2389 130 HOH HOH . H 6 HOH A 90 2390 206 HOH HOH . H 6 HOH A 91 2391 26 HOH HOH . H 6 HOH A 92 2392 6 HOH HOH . H 6 HOH A 93 2393 302 HOH HOH . H 6 HOH A 94 2394 57 HOH HOH . H 6 HOH A 95 2395 192 HOH HOH . H 6 HOH A 96 2396 199 HOH HOH . H 6 HOH A 97 2397 16 HOH HOH . H 6 HOH A 98 2398 23 HOH HOH . H 6 HOH A 99 2399 125 HOH HOH . H 6 HOH A 100 2400 37 HOH HOH . H 6 HOH A 101 2401 323 HOH HOH . H 6 HOH A 102 2402 288 HOH HOH . H 6 HOH A 103 2403 320 HOH HOH . H 6 HOH A 104 2404 290 HOH HOH . H 6 HOH A 105 2405 214 HOH HOH . H 6 HOH A 106 2406 42 HOH HOH . H 6 HOH A 107 2407 54 HOH HOH . H 6 HOH A 108 2408 296 HOH HOH . H 6 HOH A 109 2409 226 HOH HOH . H 6 HOH A 110 2410 190 HOH HOH . H 6 HOH A 111 2411 81 HOH HOH . H 6 HOH A 112 2412 313 HOH HOH . H 6 HOH A 113 2413 106 HOH HOH . H 6 HOH A 114 2414 85 HOH HOH . H 6 HOH A 115 2415 121 HOH HOH . H 6 HOH A 116 2416 65 HOH HOH . H 6 HOH A 117 2417 40 HOH HOH . H 6 HOH A 118 2418 170 HOH HOH . H 6 HOH A 119 2419 95 HOH HOH . H 6 HOH A 120 2420 151 HOH HOH . H 6 HOH A 121 2421 314 HOH HOH . H 6 HOH A 122 2422 267 HOH HOH . H 6 HOH A 123 2423 113 HOH HOH . H 6 HOH A 124 2424 45 HOH HOH . H 6 HOH A 125 2425 92 HOH HOH . H 6 HOH A 126 2426 274 HOH HOH . H 6 HOH A 127 2427 91 HOH HOH . H 6 HOH A 128 2428 34 HOH HOH . H 6 HOH A 129 2429 35 HOH HOH . H 6 HOH A 130 2430 62 HOH HOH . H 6 HOH A 131 2431 19 HOH HOH . H 6 HOH A 132 2432 262 HOH HOH . H 6 HOH A 133 2433 281 HOH HOH . H 6 HOH A 134 2434 254 HOH HOH . H 6 HOH A 135 2435 219 HOH HOH . H 6 HOH A 136 2436 211 HOH HOH . H 6 HOH A 137 2437 203 HOH HOH . H 6 HOH A 138 2438 88 HOH HOH . H 6 HOH A 139 2439 114 HOH HOH . H 6 HOH A 140 2440 101 HOH HOH . H 6 HOH A 141 2441 25 HOH HOH . H 6 HOH A 142 2442 253 HOH HOH . H 6 HOH A 143 2443 240 HOH HOH . H 6 HOH A 144 2444 58 HOH HOH . H 6 HOH A 145 2445 257 HOH HOH . H 6 HOH A 146 2446 131 HOH HOH . H 6 HOH A 147 2447 99 HOH HOH . H 6 HOH A 148 2448 227 HOH HOH . H 6 HOH A 149 2449 76 HOH HOH . H 6 HOH A 150 2450 73 HOH HOH . H 6 HOH A 151 2451 230 HOH HOH . H 6 HOH A 152 2452 263 HOH HOH . H 6 HOH A 153 2453 283 HOH HOH . H 6 HOH A 154 2454 248 HOH HOH . H 6 HOH A 155 2455 71 HOH HOH . H 6 HOH A 156 2456 273 HOH HOH . H 6 HOH A 157 2457 213 HOH HOH . H 6 HOH A 158 2458 30 HOH HOH . H 6 HOH A 159 2459 321 HOH HOH . H 6 HOH A 160 2460 12 HOH HOH . H 6 HOH A 161 2461 52 HOH HOH . H 6 HOH A 162 2462 119 HOH HOH . H 6 HOH A 163 2463 104 HOH HOH . H 6 HOH A 164 2464 111 HOH HOH . H 6 HOH A 165 2465 204 HOH HOH . H 6 HOH A 166 2466 285 HOH HOH . H 6 HOH A 167 2467 194 HOH HOH . H 6 HOH A 168 2468 72 HOH HOH . H 6 HOH A 169 2469 128 HOH HOH . H 6 HOH A 170 2470 292 HOH HOH . H 6 HOH A 171 2471 259 HOH HOH . H 6 HOH A 172 2472 233 HOH HOH . H 6 HOH A 173 2473 249 HOH HOH . H 6 HOH A 174 2474 242 HOH HOH . H 6 HOH A 175 2475 258 HOH HOH . H 6 HOH A 176 2476 305 HOH HOH . H 6 HOH A 177 2477 255 HOH HOH . H 6 HOH A 178 2478 319 HOH HOH . H 6 HOH A 179 2479 232 HOH HOH . H 6 HOH A 180 2480 142 HOH HOH . H 6 HOH A 181 2481 117 HOH HOH . H 6 HOH A 182 2482 307 HOH HOH . H 6 HOH A 183 2483 136 HOH HOH . H 6 HOH A 184 2484 308 HOH HOH . H 6 HOH A 185 2485 185 HOH HOH . H 6 HOH A 186 2486 200 HOH HOH . H 6 HOH A 187 2487 294 HOH HOH . H 6 HOH A 188 2488 112 HOH HOH . H 6 HOH A 189 2489 275 HOH HOH . H 6 HOH A 190 2490 247 HOH HOH . H 6 HOH A 191 2491 67 HOH HOH . H 6 HOH A 192 2492 272 HOH HOH . H 6 HOH A 193 2493 251 HOH HOH . H 6 HOH A 194 2494 145 HOH HOH . H 6 HOH A 195 2495 61 HOH HOH . H 6 HOH A 196 2496 299 HOH HOH . H 6 HOH A 197 2497 278 HOH HOH . H 6 HOH A 198 2498 266 HOH HOH . H 6 HOH A 199 2499 215 HOH HOH . H 6 HOH A 200 2500 86 HOH HOH . H 6 HOH A 201 2501 195 HOH HOH . H 6 HOH A 202 2502 75 HOH HOH . H 6 HOH A 203 2503 279 HOH HOH . I 6 HOH B 1 701 241 HOH HOH . I 6 HOH B 2 702 102 HOH HOH . I 6 HOH B 3 703 41 HOH HOH . I 6 HOH B 4 704 66 HOH HOH . I 6 HOH B 5 705 77 HOH HOH . I 6 HOH B 6 706 36 HOH HOH . I 6 HOH B 7 707 53 HOH HOH . I 6 HOH B 8 708 68 HOH HOH . I 6 HOH B 9 709 205 HOH HOH . I 6 HOH B 10 710 2 HOH HOH . I 6 HOH B 11 711 8 HOH HOH . I 6 HOH B 12 712 29 HOH HOH . I 6 HOH B 13 713 223 HOH HOH . I 6 HOH B 14 714 207 HOH HOH . I 6 HOH B 15 715 229 HOH HOH . I 6 HOH B 16 716 202 HOH HOH . I 6 HOH B 17 717 252 HOH HOH . I 6 HOH B 18 718 28 HOH HOH . I 6 HOH B 19 719 286 HOH HOH . I 6 HOH B 20 720 9 HOH HOH . I 6 HOH B 21 721 10 HOH HOH . I 6 HOH B 22 722 269 HOH HOH . I 6 HOH B 23 723 268 HOH HOH . I 6 HOH B 24 724 59 HOH HOH . I 6 HOH B 25 725 50 HOH HOH . I 6 HOH B 26 726 22 HOH HOH . I 6 HOH B 27 727 87 HOH HOH . I 6 HOH B 28 728 261 HOH HOH . I 6 HOH B 29 729 186 HOH HOH . I 6 HOH B 30 730 110 HOH HOH . I 6 HOH B 31 731 97 HOH HOH . I 6 HOH B 32 732 84 HOH HOH . I 6 HOH B 33 733 7 HOH HOH . I 6 HOH B 34 734 20 HOH HOH . I 6 HOH B 35 735 303 HOH HOH . I 6 HOH B 36 736 295 HOH HOH . I 6 HOH B 37 737 270 HOH HOH . I 6 HOH B 38 738 143 HOH HOH . I 6 HOH B 39 739 239 HOH HOH . I 6 HOH B 40 740 231 HOH HOH . I 6 HOH B 41 741 271 HOH HOH . I 6 HOH B 42 742 237 HOH HOH . I 6 HOH B 43 743 187 HOH HOH . I 6 HOH B 44 744 312 HOH HOH . I 6 HOH B 45 745 210 HOH HOH . I 6 HOH B 46 746 309 HOH HOH . I 6 HOH B 47 747 156 HOH HOH . I 6 HOH B 48 748 132 HOH HOH . I 6 HOH B 49 749 115 HOH HOH . I 6 HOH B 50 750 140 HOH HOH . I 6 HOH B 51 751 289 HOH HOH . I 6 HOH B 52 752 244 HOH HOH . I 6 HOH B 53 753 201 HOH HOH . I 6 HOH B 54 754 277 HOH HOH . I 6 HOH B 55 755 228 HOH HOH . I 6 HOH B 56 756 118 HOH HOH . I 6 HOH B 57 757 298 HOH HOH . I 6 HOH B 58 758 311 HOH HOH . I 6 HOH B 59 759 280 HOH HOH . I 6 HOH B 60 760 122 HOH HOH . I 6 HOH B 61 761 293 HOH HOH . I 6 HOH B 62 762 243 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 MLT . . . E 4 24.248 18.718 34.962 1 79.63 ? C1 MLT 2203 A 1 HETATM 2 O O1 MLT . . . E 4 23.237 18.661 34.22 1 80.55 ? O1 MLT 2203 A 1 HETATM 3 O O2 MLT . . . E 4 24.92 17.673 35.144 1 79.99 ? O2 MLT 2203 A 1 HETATM 4 C C2 MLT . . . E 4 24.673 20.019 35.608 1 77.12 ? C2 MLT 2203 A 1 HETATM 5 O O3 MLT . . . E 4 24.525 19.989 37.012 1 73.21 ? O3 MLT 2203 A 1 HETATM 6 C C3 MLT . . . E 4 23.947 21.24 35.049 1 78.38 ? C3 MLT 2203 A 1 HETATM 7 C C4 MLT . . . E 4 24.369 22.488 35.8 1 78.33 ? C4 MLT 2203 A 1 HETATM 8 O O4 MLT . . . E 4 25.085 23.357 35.25 1 77.99 ? O4 MLT 2203 A 1 HETATM 9 O O5 MLT . . . E 4 24.006 22.673 36.983 1 77.91 ? O5 MLT 2203 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 285 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 9 #