data_4GC9 # _model_server_result.job_id 7Ak7bI47N6XKnIy9WMQXIw _model_server_result.datetime_utc '2025-03-01 07:21:59' _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 4gc9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4GC9 # _exptl.entry_id 4GC9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 90 _cell.angle_gamma 90 _cell.entry_id 4GC9 _cell.length_a 47.7 _cell.length_b 101.68 _cell.length_c 211.71 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GC9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D 1 1 A,B,C,D 2 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' 2_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -47.7 -101.68 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C GLN 95 A GLN 95 1_555 A N MSE 96 A MSE 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C MSE 96 A MSE 96 1_555 A N LEU 97 A LEU 97 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale3 A C LYS 171 A LYS 171 1_555 A N MSE 172 A MSE 172 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C MSE 172 A MSE 172 1_555 A N THR 173 A THR 173 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale5 A C ILE 198 A ILE 198 1_555 A N MSE 199 A MSE 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C MSE 199 A MSE 199 1_555 A N ALA 200 A ALA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 A C GLY 265 A GLY 265 1_555 A N MSE 266 A MSE 266 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale8 A C MSE 266 A MSE 266 1_555 A N LEU 267 A LEU 267 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale9 A C LEU 297 A LEU 297 1_555 A N MSE 298 A MSE 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 A C MSE 298 A MSE 298 1_555 A N HIS 299 A HIS 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale11 A C LYS 309 A LYS 309 1_555 A N MSE 310 A MSE 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale12 A C MSE 310 A MSE 310 1_555 A N CYS 311 A CYS 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 283 n n N HN1 SAM sing 284 n n N HN2 SAM sing 285 n n CA C SAM sing 286 n n CA CB SAM sing 287 n n CA HA SAM sing 288 n n C O SAM doub 289 n n C OXT SAM sing 290 n n CB CG SAM sing 291 n n CB HB1 SAM sing 292 n n CB HB2 SAM sing 293 n n CG SD SAM sing 294 n n CG HG1 SAM sing 295 n n CG HG2 SAM sing 296 n n SD CE SAM sing 297 n n SD C5' SAM sing 298 n n CE HE1 SAM sing 299 n n CE HE2 SAM sing 300 n n CE HE3 SAM sing 301 n n C5' C4' SAM sing 302 n n C5' "H5'1" SAM sing 303 n n C5' "H5'2" SAM sing 304 n n C4' O4' SAM sing 305 n n C4' C3' SAM sing 306 n n C4' H4' SAM sing 307 n n O4' C1' SAM sing 308 n n C3' O3' SAM sing 309 n n C3' C2' SAM sing 310 n n C3' H3' SAM sing 311 n n O3' HO3' SAM sing 312 n n C2' O2' SAM sing 313 n n C2' C1' SAM sing 314 n n C2' H2' SAM sing 315 n n O2' HO2' SAM sing 316 n n C1' N9 SAM sing 317 n n C1' H1' SAM sing 318 n n N9 C8 SAM sing 319 n y N9 C4 SAM sing 320 n y C8 N7 SAM doub 321 n y C8 H8 SAM sing 322 n n N7 C5 SAM sing 323 n y C5 C6 SAM sing 324 n y C5 C4 SAM doub 325 n y C6 N6 SAM sing 326 n n C6 N1 SAM doub 327 n y N6 HN61 SAM sing 328 n n N6 HN62 SAM sing 329 n n N1 C2 SAM sing 330 n y C2 N3 SAM doub 331 n y C2 H2 SAM sing 332 n n N3 C4 SAM sing 333 n y # _atom_sites.entry_id 4GC9 _atom_sites.fract_transf_matrix[1][1] 0.020964 _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] 0.009835 _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] 0.004723 _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 SAM A 1 401 328 SAM SAM . C 3 ACT A 1 402 329 ACT ACT . D 4 HOH A 1 501 330 HOH HOH . D 4 HOH A 2 502 331 HOH HOH . D 4 HOH A 3 503 332 HOH HOH . D 4 HOH A 4 504 333 HOH HOH . D 4 HOH A 5 505 334 HOH HOH . D 4 HOH A 6 506 335 HOH HOH . D 4 HOH A 7 507 336 HOH HOH . D 4 HOH A 8 508 337 HOH HOH . D 4 HOH A 9 509 338 HOH HOH . D 4 HOH A 10 510 339 HOH HOH . D 4 HOH A 11 511 340 HOH HOH . D 4 HOH A 12 512 342 HOH HOH . D 4 HOH A 13 513 343 HOH HOH . D 4 HOH A 14 514 344 HOH HOH . D 4 HOH A 15 515 345 HOH HOH . D 4 HOH A 16 516 346 HOH HOH . D 4 HOH A 17 517 347 HOH HOH . D 4 HOH A 18 518 348 HOH HOH . D 4 HOH A 19 519 349 HOH HOH . D 4 HOH A 20 520 350 HOH HOH . D 4 HOH A 21 521 351 HOH HOH . D 4 HOH A 22 522 352 HOH HOH . D 4 HOH A 23 523 353 HOH HOH . D 4 HOH A 24 524 354 HOH HOH . D 4 HOH A 25 525 355 HOH HOH . D 4 HOH A 26 526 356 HOH HOH . D 4 HOH A 27 527 357 HOH HOH . D 4 HOH A 28 528 358 HOH HOH . D 4 HOH A 29 529 359 HOH HOH . D 4 HOH A 30 530 360 HOH HOH . D 4 HOH A 31 531 361 HOH HOH . D 4 HOH A 32 532 362 HOH HOH . D 4 HOH A 33 533 363 HOH HOH . D 4 HOH A 34 534 364 HOH HOH . D 4 HOH A 35 535 365 HOH HOH . D 4 HOH A 36 536 366 HOH HOH . D 4 HOH A 37 537 367 HOH HOH . D 4 HOH A 38 538 368 HOH HOH . D 4 HOH A 39 539 369 HOH HOH . D 4 HOH A 40 540 370 HOH HOH . D 4 HOH A 41 541 371 HOH HOH . D 4 HOH A 42 542 372 HOH HOH . D 4 HOH A 43 543 373 HOH HOH . D 4 HOH A 44 544 374 HOH HOH . D 4 HOH A 45 545 375 HOH HOH . D 4 HOH A 46 546 376 HOH HOH . D 4 HOH A 47 547 377 HOH HOH . D 4 HOH A 48 548 378 HOH HOH . D 4 HOH A 49 549 379 HOH HOH . D 4 HOH A 50 550 380 HOH HOH . D 4 HOH A 51 551 381 HOH HOH . D 4 HOH A 52 552 382 HOH HOH . D 4 HOH A 53 553 383 HOH HOH . D 4 HOH A 54 554 384 HOH HOH . D 4 HOH A 55 555 385 HOH HOH . D 4 HOH A 56 556 386 HOH HOH . D 4 HOH A 57 557 387 HOH HOH . D 4 HOH A 58 558 388 HOH HOH . D 4 HOH A 59 559 389 HOH HOH . D 4 HOH A 60 560 390 HOH HOH . D 4 HOH A 61 561 391 HOH HOH . D 4 HOH A 62 562 392 HOH HOH . D 4 HOH A 63 563 393 HOH HOH . D 4 HOH A 64 564 394 HOH HOH . D 4 HOH A 65 565 395 HOH HOH . D 4 HOH A 66 566 396 HOH HOH . D 4 HOH A 67 567 397 HOH HOH . D 4 HOH A 68 568 398 HOH HOH . D 4 HOH A 69 569 399 HOH HOH . D 4 HOH A 70 570 400 HOH HOH . D 4 HOH A 71 571 401 HOH HOH . D 4 HOH A 72 572 402 HOH HOH . D 4 HOH A 73 573 403 HOH HOH . D 4 HOH A 74 574 404 HOH HOH . D 4 HOH A 75 575 405 HOH HOH . D 4 HOH A 76 576 406 HOH HOH . D 4 HOH A 77 577 407 HOH HOH . D 4 HOH A 78 578 408 HOH HOH . D 4 HOH A 79 579 409 HOH HOH . D 4 HOH A 80 580 410 HOH HOH . D 4 HOH A 81 581 411 HOH HOH . D 4 HOH A 82 582 412 HOH HOH . D 4 HOH A 83 583 413 HOH HOH . D 4 HOH A 84 584 414 HOH HOH . D 4 HOH A 85 585 415 HOH HOH . D 4 HOH A 86 586 416 HOH HOH . D 4 HOH A 87 587 417 HOH HOH . D 4 HOH A 88 588 418 HOH HOH . D 4 HOH A 89 589 419 HOH HOH . D 4 HOH A 90 590 420 HOH HOH . D 4 HOH A 91 591 421 HOH HOH . D 4 HOH A 92 592 422 HOH HOH . D 4 HOH A 93 593 423 HOH HOH . D 4 HOH A 94 594 424 HOH HOH . D 4 HOH A 95 595 425 HOH HOH . D 4 HOH A 96 596 426 HOH HOH . D 4 HOH A 97 597 427 HOH HOH . D 4 HOH A 98 598 428 HOH HOH . D 4 HOH A 99 599 429 HOH HOH . D 4 HOH A 100 600 430 HOH HOH . D 4 HOH A 101 601 431 HOH HOH . D 4 HOH A 102 602 432 HOH HOH . D 4 HOH A 103 603 433 HOH HOH . D 4 HOH A 104 604 434 HOH HOH . D 4 HOH A 105 605 435 HOH HOH . D 4 HOH A 106 606 437 HOH HOH . D 4 HOH A 107 607 438 HOH HOH . D 4 HOH A 108 608 439 HOH HOH . D 4 HOH A 109 609 440 HOH HOH . D 4 HOH A 110 610 441 HOH HOH . D 4 HOH A 111 611 442 HOH HOH . D 4 HOH A 112 612 443 HOH HOH . D 4 HOH A 113 613 444 HOH HOH . D 4 HOH A 114 614 445 HOH HOH . D 4 HOH A 115 615 446 HOH HOH . D 4 HOH A 116 616 447 HOH HOH . D 4 HOH A 117 617 448 HOH HOH . D 4 HOH A 118 618 449 HOH HOH . D 4 HOH A 119 619 450 HOH HOH . D 4 HOH A 120 620 451 HOH HOH . D 4 HOH A 121 621 452 HOH HOH . D 4 HOH A 122 622 453 HOH HOH . D 4 HOH A 123 623 454 HOH HOH . D 4 HOH A 124 624 455 HOH HOH . D 4 HOH A 125 625 456 HOH HOH . D 4 HOH A 126 626 457 HOH HOH . D 4 HOH A 127 627 458 HOH HOH . D 4 HOH A 128 628 459 HOH HOH . D 4 HOH A 129 629 460 HOH HOH . D 4 HOH A 130 630 461 HOH HOH . D 4 HOH A 131 631 462 HOH HOH . D 4 HOH A 132 632 463 HOH HOH . D 4 HOH A 133 633 464 HOH HOH . D 4 HOH A 134 634 465 HOH HOH . D 4 HOH A 135 635 466 HOH HOH . D 4 HOH A 136 636 467 HOH HOH . D 4 HOH A 137 637 468 HOH HOH . D 4 HOH A 138 639 470 HOH HOH . D 4 HOH A 139 640 471 HOH HOH . D 4 HOH A 140 641 472 HOH HOH . D 4 HOH A 141 642 473 HOH HOH . D 4 HOH A 142 643 474 HOH HOH . D 4 HOH A 143 644 475 HOH HOH . D 4 HOH A 144 645 476 HOH HOH . D 4 HOH A 145 646 477 HOH HOH . D 4 HOH A 146 647 478 HOH HOH . D 4 HOH A 147 648 479 HOH HOH . D 4 HOH A 148 649 480 HOH HOH . D 4 HOH A 149 650 481 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 N SAM . . . B 2 -17.685 -32.093 -15.137 0.98 66.14 ? N SAM 401 A 1 HETATM 2 C CA SAM . . . B 2 -18.589 -33.073 -14.547 0.98 63.98 ? CA SAM 401 A 1 HETATM 3 C C SAM . . . B 2 -17.966 -33.763 -13.338 0.98 51.16 ? C SAM 401 A 1 HETATM 4 O O SAM . . . B 2 -18.548 -33.777 -12.253 0.98 65.68 ? O SAM 401 A 1 HETATM 5 O OXT SAM . . . B 2 -16.87 -34.318 -13.412 0.98 45.7 ? OXT SAM 401 A 1 HETATM 6 C CB SAM . . . B 2 -19 -34.114 -15.58 0.98 71.87 ? CB SAM 401 A 1 HETATM 7 C CG SAM . . . B 2 -17.835 -34.627 -16.41 0.98 64.49 ? CG SAM 401 A 1 HETATM 8 S SD SAM . . . B 2 -18.006 -36.359 -16.886 0.98 83.53 ? SD SAM 401 A 1 HETATM 9 C CE SAM . . . B 2 -16.251 -36.783 -16.957 0.98 57.73 ? CE SAM 401 A 1 HETATM 10 C C5' SAM . . . B 2 -18.345 -36.138 -18.646 0.98 68.01 ? C5' SAM 401 A 1 HETATM 11 C C4' SAM . . . B 2 -19.83 -36.013 -18.942 0.98 63.31 ? C4' SAM 401 A 1 HETATM 12 O O4' SAM . . . B 2 -19.98 -35.441 -20.222 0.98 58.4 ? O4' SAM 401 A 1 HETATM 13 C C3' SAM . . . B 2 -20.516 -37.367 -18.956 0.98 65.95 ? C3' SAM 401 A 1 HETATM 14 O O3' SAM . . . B 2 -21.54 -37.359 -17.989 0.98 70.02 ? O3' SAM 401 A 1 HETATM 15 C C2' SAM . . . B 2 -21.094 -37.511 -20.349 0.98 62.09 ? C2' SAM 401 A 1 HETATM 16 O O2' SAM . . . B 2 -22.455 -37.841 -20.283 0.98 63.9 ? O2' SAM 401 A 1 HETATM 17 C C1' SAM . . . B 2 -20.952 -36.137 -20.969 0.98 52.47 ? C1' SAM 401 A 1 HETATM 18 N N9 SAM . . . B 2 -20.565 -36.226 -22.387 0.98 39.47 ? N9 SAM 401 A 1 HETATM 19 C C8 SAM . . . B 2 -19.574 -37 -22.932 0.98 26.69 ? C8 SAM 401 A 1 HETATM 20 N N7 SAM . . . B 2 -19.554 -36.784 -24.267 0.98 25.32 ? N7 SAM 401 A 1 HETATM 21 C C5 SAM . . . B 2 -20.517 -35.888 -24.58 0.98 36.69 ? C5 SAM 401 A 1 HETATM 22 C C6 SAM . . . B 2 -20.925 -35.321 -25.782 0.98 42.82 ? C6 SAM 401 A 1 HETATM 23 N N6 SAM . . . B 2 -20.327 -35.646 -26.925 0.98 50.58 ? N6 SAM 401 A 1 HETATM 24 N N1 SAM . . . B 2 -21.964 -34.414 -25.781 0.98 34.45 ? N1 SAM 401 A 1 HETATM 25 C C2 SAM . . . B 2 -22.59 -34.072 -24.6 0.98 37.8 ? C2 SAM 401 A 1 HETATM 26 N N3 SAM . . . B 2 -22.179 -34.636 -23.411 0.98 30.94 ? N3 SAM 401 A 1 HETATM 27 C C4 SAM . . . B 2 -21.16 -35.529 -23.404 0.98 33.71 ? C4 SAM 401 A 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #