data_2HYK # _model_server_result.job_id 9Ee-7Th65P2_wW4GqyA4xg _model_server_result.datetime_utc '2025-01-06 02:07:22' _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 2hyk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":249}' # _entry.id 2HYK # _exptl.entry_id 2HYK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.21 _cell.angle_gamma 90 _cell.entry_id 2HYK _cell.length_a 34.589 _cell.length_b 71.843 _cell.length_c 39.666 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2HYK _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 ? 5 F N N ? 5 G N N ? 5 H 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 metalc ? metalc1 A O GLU 14 A GLU 14 1_555 C CA CA . A CA 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc2 A O GLY 58 A GLY 58 1_555 C CA CA . A CA 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc3 A O ASP 237 A ASP 237 1_555 C CA CA . A CA 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc4 A OD1 ASP 237 A ASP 237 1_555 C CA CA . A CA 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc5 C CA CA . A CA 477 1_555 I O HOH . A HOH 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc6 C CA CA . A CA 477 1_555 I O HOH . A HOH 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc7 C CA CA . A CA 477 1_555 I O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 GOL sing 124 n n C1 C2 GOL sing 125 n n C1 H11 GOL sing 126 n n C1 H12 GOL sing 127 n n O1 HO1 GOL sing 128 n n C2 O2 GOL sing 129 n n C2 C3 GOL sing 130 n n C2 H2 GOL sing 131 n n O2 HO2 GOL sing 132 n n C3 O3 GOL sing 133 n n C3 H31 GOL sing 134 n n C3 H32 GOL sing 135 n n O3 HO3 GOL sing 136 n n # _atom_sites.entry_id 2HYK _atom_sites.fract_transf_matrix[1][1] 0.028911 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000106 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013919 _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] 0.025211 _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 SO4 A 1 251 251 SO4 SO4 . C 3 CA A 1 477 477 CA CA . D 4 EOH A 1 246 246 EOH EOH . E 4 EOH A 1 247 247 EOH EOH . F 5 GOL A 1 248 248 GOL GOL . G 5 GOL A 1 249 249 GOL GOL . H 5 GOL A 1 250 250 GOL GOL . I 6 HOH A 1 478 252 HOH HOH . I 6 HOH A 2 479 253 HOH HOH . I 6 HOH A 3 480 254 HOH HOH . I 6 HOH A 4 481 255 HOH HOH . I 6 HOH A 5 482 256 HOH HOH . I 6 HOH A 6 483 257 HOH HOH . I 6 HOH A 7 484 258 HOH HOH . I 6 HOH A 8 485 259 HOH HOH . I 6 HOH A 9 486 260 HOH HOH . I 6 HOH A 10 487 261 HOH HOH . I 6 HOH A 11 488 262 HOH HOH . I 6 HOH A 12 489 263 HOH HOH . I 6 HOH A 13 490 264 HOH HOH . I 6 HOH A 14 491 265 HOH HOH . I 6 HOH A 15 492 266 HOH HOH . I 6 HOH A 16 493 267 HOH HOH . I 6 HOH A 17 494 268 HOH HOH . I 6 HOH A 18 495 269 HOH HOH . I 6 HOH A 19 496 270 HOH HOH . I 6 HOH A 20 497 271 HOH HOH . I 6 HOH A 21 498 272 HOH HOH . I 6 HOH A 22 499 273 HOH HOH . I 6 HOH A 23 500 274 HOH HOH . I 6 HOH A 24 501 275 HOH HOH . I 6 HOH A 25 502 276 HOH HOH . I 6 HOH A 26 503 277 HOH HOH . I 6 HOH A 27 504 278 HOH HOH . I 6 HOH A 28 505 279 HOH HOH . I 6 HOH A 29 506 280 HOH HOH . I 6 HOH A 30 507 281 HOH HOH . I 6 HOH A 31 508 282 HOH HOH . I 6 HOH A 32 509 283 HOH HOH . I 6 HOH A 33 510 284 HOH HOH . I 6 HOH A 34 511 285 HOH HOH . I 6 HOH A 35 512 286 HOH HOH . I 6 HOH A 36 513 287 HOH HOH . I 6 HOH A 37 514 288 HOH HOH . I 6 HOH A 38 515 289 HOH HOH . I 6 HOH A 39 516 290 HOH HOH . I 6 HOH A 40 517 291 HOH HOH . I 6 HOH A 41 518 292 HOH HOH . I 6 HOH A 42 519 293 HOH HOH . I 6 HOH A 43 520 294 HOH HOH . I 6 HOH A 44 521 295 HOH HOH . I 6 HOH A 45 522 296 HOH HOH . I 6 HOH A 46 523 297 HOH HOH . I 6 HOH A 47 524 298 HOH HOH . I 6 HOH A 48 525 299 HOH HOH . I 6 HOH A 49 526 300 HOH HOH . I 6 HOH A 50 527 301 HOH HOH . I 6 HOH A 51 528 302 HOH HOH . I 6 HOH A 52 529 303 HOH HOH . I 6 HOH A 53 530 304 HOH HOH . I 6 HOH A 54 531 305 HOH HOH . I 6 HOH A 55 532 306 HOH HOH . I 6 HOH A 56 533 307 HOH HOH . I 6 HOH A 57 534 308 HOH HOH . I 6 HOH A 58 535 309 HOH HOH . I 6 HOH A 59 536 310 HOH HOH . I 6 HOH A 60 537 311 HOH HOH . I 6 HOH A 61 538 312 HOH HOH . I 6 HOH A 62 539 313 HOH HOH . I 6 HOH A 63 540 314 HOH HOH . I 6 HOH A 64 541 315 HOH HOH . I 6 HOH A 65 542 316 HOH HOH . I 6 HOH A 66 543 317 HOH HOH . I 6 HOH A 67 544 318 HOH HOH . I 6 HOH A 68 545 319 HOH HOH . I 6 HOH A 69 546 320 HOH HOH . I 6 HOH A 70 547 321 HOH HOH . I 6 HOH A 71 548 322 HOH HOH . I 6 HOH A 72 549 323 HOH HOH . I 6 HOH A 73 550 324 HOH HOH . I 6 HOH A 74 551 325 HOH HOH . I 6 HOH A 75 552 326 HOH HOH . I 6 HOH A 76 553 327 HOH HOH . I 6 HOH A 77 554 328 HOH HOH . I 6 HOH A 78 555 329 HOH HOH . I 6 HOH A 79 556 330 HOH HOH . I 6 HOH A 80 557 331 HOH HOH . I 6 HOH A 81 558 332 HOH HOH . I 6 HOH A 82 559 333 HOH HOH . I 6 HOH A 83 560 334 HOH HOH . I 6 HOH A 84 561 335 HOH HOH . I 6 HOH A 85 562 336 HOH HOH . I 6 HOH A 86 563 337 HOH HOH . I 6 HOH A 87 564 338 HOH HOH . I 6 HOH A 88 565 339 HOH HOH . I 6 HOH A 89 566 340 HOH HOH . I 6 HOH A 90 567 341 HOH HOH . I 6 HOH A 91 568 342 HOH HOH . I 6 HOH A 92 569 343 HOH HOH . I 6 HOH A 93 570 344 HOH HOH . I 6 HOH A 94 571 345 HOH HOH . I 6 HOH A 95 572 346 HOH HOH . I 6 HOH A 96 573 347 HOH HOH . I 6 HOH A 97 574 348 HOH HOH . I 6 HOH A 98 575 349 HOH HOH . I 6 HOH A 99 576 350 HOH HOH . I 6 HOH A 100 577 351 HOH HOH . I 6 HOH A 101 578 352 HOH HOH . I 6 HOH A 102 579 353 HOH HOH . I 6 HOH A 103 580 354 HOH HOH . I 6 HOH A 104 581 355 HOH HOH . I 6 HOH A 105 582 356 HOH HOH . I 6 HOH A 106 583 357 HOH HOH . I 6 HOH A 107 584 358 HOH HOH . I 6 HOH A 108 585 359 HOH HOH . I 6 HOH A 109 586 360 HOH HOH . I 6 HOH A 110 587 361 HOH HOH . I 6 HOH A 111 588 362 HOH HOH . I 6 HOH A 112 589 363 HOH HOH . I 6 HOH A 113 590 364 HOH HOH . I 6 HOH A 114 591 365 HOH HOH . I 6 HOH A 115 592 366 HOH HOH . I 6 HOH A 116 593 367 HOH HOH . I 6 HOH A 117 594 368 HOH HOH . I 6 HOH A 118 595 369 HOH HOH . I 6 HOH A 119 596 370 HOH HOH . I 6 HOH A 120 597 371 HOH HOH . I 6 HOH A 121 598 372 HOH HOH . I 6 HOH A 122 599 373 HOH HOH . I 6 HOH A 123 600 374 HOH HOH . I 6 HOH A 124 601 375 HOH HOH . I 6 HOH A 125 602 376 HOH HOH . I 6 HOH A 126 603 377 HOH HOH . I 6 HOH A 127 604 378 HOH HOH . I 6 HOH A 128 605 379 HOH HOH . I 6 HOH A 129 606 380 HOH HOH . I 6 HOH A 130 607 381 HOH HOH . I 6 HOH A 131 608 382 HOH HOH . I 6 HOH A 132 609 383 HOH HOH . I 6 HOH A 133 610 384 HOH HOH . I 6 HOH A 134 611 385 HOH HOH . I 6 HOH A 135 612 386 HOH HOH . I 6 HOH A 136 613 387 HOH HOH . I 6 HOH A 137 614 389 HOH HOH . I 6 HOH A 138 615 390 HOH HOH . I 6 HOH A 139 616 391 HOH HOH . I 6 HOH A 140 617 392 HOH HOH . I 6 HOH A 141 618 393 HOH HOH . I 6 HOH A 142 619 394 HOH HOH . I 6 HOH A 143 620 395 HOH HOH . I 6 HOH A 144 621 396 HOH HOH . I 6 HOH A 145 622 397 HOH HOH . I 6 HOH A 146 623 398 HOH HOH . I 6 HOH A 147 624 399 HOH HOH . I 6 HOH A 148 625 400 HOH HOH . I 6 HOH A 149 626 401 HOH HOH . I 6 HOH A 150 627 402 HOH HOH . I 6 HOH A 151 628 403 HOH HOH . I 6 HOH A 152 629 404 HOH HOH . I 6 HOH A 153 630 405 HOH HOH . I 6 HOH A 154 631 406 HOH HOH . I 6 HOH A 155 632 407 HOH HOH . I 6 HOH A 156 633 408 HOH HOH . I 6 HOH A 157 634 409 HOH HOH . I 6 HOH A 158 635 410 HOH HOH . I 6 HOH A 159 636 411 HOH HOH . I 6 HOH A 160 637 412 HOH HOH . I 6 HOH A 161 638 413 HOH HOH . I 6 HOH A 162 639 414 HOH HOH . I 6 HOH A 163 640 415 HOH HOH . I 6 HOH A 164 641 416 HOH HOH . I 6 HOH A 165 642 417 HOH HOH . I 6 HOH A 166 643 418 HOH HOH . I 6 HOH A 167 644 419 HOH HOH . I 6 HOH A 168 645 420 HOH HOH . I 6 HOH A 169 646 421 HOH HOH . I 6 HOH A 170 647 422 HOH HOH . I 6 HOH A 171 648 423 HOH HOH . I 6 HOH A 172 649 424 HOH HOH . I 6 HOH A 173 650 425 HOH HOH . I 6 HOH A 174 651 426 HOH HOH . I 6 HOH A 175 652 427 HOH HOH . I 6 HOH A 176 653 428 HOH HOH . I 6 HOH A 177 654 429 HOH HOH . I 6 HOH A 178 655 430 HOH HOH . I 6 HOH A 179 656 431 HOH HOH . I 6 HOH A 180 657 432 HOH HOH . I 6 HOH A 181 658 433 HOH HOH . I 6 HOH A 182 659 435 HOH HOH . I 6 HOH A 183 660 436 HOH HOH . I 6 HOH A 184 661 437 HOH HOH . I 6 HOH A 185 662 438 HOH HOH . I 6 HOH A 186 663 439 HOH HOH . I 6 HOH A 187 664 440 HOH HOH . I 6 HOH A 188 665 441 HOH HOH . I 6 HOH A 189 666 442 HOH HOH . I 6 HOH A 190 667 443 HOH HOH . I 6 HOH A 191 668 444 HOH HOH . I 6 HOH A 192 669 445 HOH HOH . I 6 HOH A 193 670 446 HOH HOH . I 6 HOH A 194 671 447 HOH HOH . I 6 HOH A 195 672 448 HOH HOH . I 6 HOH A 196 673 449 HOH HOH . I 6 HOH A 197 674 450 HOH HOH . I 6 HOH A 198 675 451 HOH HOH . I 6 HOH A 199 676 452 HOH HOH . I 6 HOH A 200 677 453 HOH HOH . I 6 HOH A 201 678 454 HOH HOH . I 6 HOH A 202 679 455 HOH HOH . I 6 HOH A 203 680 456 HOH HOH . I 6 HOH A 204 681 457 HOH HOH . I 6 HOH A 205 682 458 HOH HOH . I 6 HOH A 206 683 459 HOH HOH . I 6 HOH A 207 684 461 HOH HOH . I 6 HOH A 208 685 463 HOH HOH . I 6 HOH A 209 686 465 HOH HOH . I 6 HOH A 210 687 466 HOH HOH . I 6 HOH A 211 688 469 HOH HOH . I 6 HOH A 212 689 470 HOH HOH . I 6 HOH A 213 690 471 HOH HOH . I 6 HOH A 214 691 472 HOH HOH . I 6 HOH A 215 692 473 HOH HOH . I 6 HOH A 216 693 475 HOH HOH . I 6 HOH A 217 694 476 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 GOL . . . G 5 28.94 33.741 38.173 1 19.08 ? C1 GOL 249 A 1 HETATM 2 O O1 GOL . . . G 5 30.063 34.284 37.513 1 20.45 ? O1 GOL 249 A 1 HETATM 3 C C2 GOL . . . G 5 28.356 34.815 39.081 1 18.44 ? C2 GOL 249 A 1 HETATM 4 O O2 GOL . . . G 5 27.813 35.827 38.27 1 16.8 ? O2 GOL 249 A 1 HETATM 5 C C3 GOL . . . G 5 27.25 34.247 39.96 1 19.24 ? C3 GOL 249 A 1 HETATM 6 O O3 GOL . . . G 5 27.03 35.134 41.038 1 19.02 ? O3 GOL 249 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 6 #