data_5KQS # _model_server_result.job_id 8562z_UIVriJ6ntviTv5PQ _model_server_result.datetime_utc '2024-11-27 01:00:08' _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 5kqs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":307}' # _entry.id 5KQS # _exptl.entry_id 5KQS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 5 _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 104.4 _cell.angle_gamma 90 _cell.entry_id 5KQS _cell.length_a 129.34 _cell.length_b 77.48 _cell.length_c 37.03 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KQS _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 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,F,G,H,I,J _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 5 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 350 n n N HN1 SAM sing 351 n n N HN2 SAM sing 352 n n CA C SAM sing 353 n n CA CB SAM sing 354 n n CA HA SAM sing 355 n n C O SAM doub 356 n n C OXT SAM sing 357 n n CB CG SAM sing 358 n n CB HB1 SAM sing 359 n n CB HB2 SAM sing 360 n n CG SD SAM sing 361 n n CG HG1 SAM sing 362 n n CG HG2 SAM sing 363 n n SD CE SAM sing 364 n n SD C5' SAM sing 365 n n CE HE1 SAM sing 366 n n CE HE2 SAM sing 367 n n CE HE3 SAM sing 368 n n C5' C4' SAM sing 369 n n C5' "H5'1" SAM sing 370 n n C5' "H5'2" SAM sing 371 n n C4' O4' SAM sing 372 n n C4' C3' SAM sing 373 n n C4' H4' SAM sing 374 n n O4' C1' SAM sing 375 n n C3' O3' SAM sing 376 n n C3' C2' SAM sing 377 n n C3' H3' SAM sing 378 n n O3' HO3' SAM sing 379 n n C2' O2' SAM sing 380 n n C2' C1' SAM sing 381 n n C2' H2' SAM sing 382 n n O2' HO2' SAM sing 383 n n C1' N9 SAM sing 384 n n C1' H1' SAM sing 385 n n N9 C8 SAM sing 386 n y N9 C4 SAM sing 387 n y C8 N7 SAM doub 388 n y C8 H8 SAM sing 389 n n N7 C5 SAM sing 390 n y C5 C6 SAM sing 391 n y C5 C4 SAM doub 392 n y C6 N6 SAM sing 393 n n C6 N1 SAM doub 394 n y N6 HN61 SAM sing 395 n n N6 HN62 SAM sing 396 n n N1 C2 SAM sing 397 n y C2 N3 SAM doub 398 n y C2 H2 SAM sing 399 n n N3 C4 SAM sing 400 n y # _atom_sites.entry_id 5KQS _atom_sites.fract_transf_matrix[1][1] 0.007732 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001985 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012907 _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] 0.027881 _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 M7G A 1 301 1 M7G M7G . C 3 GOL A 1 302 1 GOL GOL . D 3 GOL A 1 303 2 GOL GOL . E 3 GOL A 1 304 3 GOL GOL . F 3 GOL A 1 305 4 GOL GOL . G 4 ACT A 1 306 1 ACT ACT . H 5 SAM A 1 307 1 SAM SAM . I 6 PO4 A 1 308 1 PO4 PO4 . J 7 HOH A 1 401 180 HOH HOH . J 7 HOH A 2 402 70 HOH HOH . J 7 HOH A 3 403 204 HOH HOH . J 7 HOH A 4 404 185 HOH HOH . J 7 HOH A 5 405 126 HOH HOH . J 7 HOH A 6 406 234 HOH HOH . J 7 HOH A 7 407 231 HOH HOH . J 7 HOH A 8 408 199 HOH HOH . J 7 HOH A 9 409 128 HOH HOH . J 7 HOH A 10 410 116 HOH HOH . J 7 HOH A 11 411 34 HOH HOH . J 7 HOH A 12 412 155 HOH HOH . J 7 HOH A 13 413 163 HOH HOH . J 7 HOH A 14 414 62 HOH HOH . J 7 HOH A 15 415 118 HOH HOH . J 7 HOH A 16 416 40 HOH HOH . J 7 HOH A 17 417 59 HOH HOH . J 7 HOH A 18 418 193 HOH HOH . J 7 HOH A 19 419 22 HOH HOH . J 7 HOH A 20 420 228 HOH HOH . J 7 HOH A 21 421 152 HOH HOH . J 7 HOH A 22 422 33 HOH HOH . J 7 HOH A 23 423 122 HOH HOH . J 7 HOH A 24 424 173 HOH HOH . J 7 HOH A 25 425 243 HOH HOH . J 7 HOH A 26 426 171 HOH HOH . J 7 HOH A 27 427 91 HOH HOH . J 7 HOH A 28 428 7 HOH HOH . J 7 HOH A 29 429 226 HOH HOH . J 7 HOH A 30 430 137 HOH HOH . J 7 HOH A 31 431 157 HOH HOH . J 7 HOH A 32 432 3 HOH HOH . J 7 HOH A 33 433 8 HOH HOH . J 7 HOH A 34 434 140 HOH HOH . J 7 HOH A 35 435 240 HOH HOH . J 7 HOH A 36 436 26 HOH HOH . J 7 HOH A 37 437 125 HOH HOH . J 7 HOH A 38 438 183 HOH HOH . J 7 HOH A 39 439 52 HOH HOH . J 7 HOH A 40 440 42 HOH HOH . J 7 HOH A 41 441 24 HOH HOH . J 7 HOH A 42 442 151 HOH HOH . J 7 HOH A 43 443 55 HOH HOH . J 7 HOH A 44 444 135 HOH HOH . J 7 HOH A 45 445 115 HOH HOH . J 7 HOH A 46 446 28 HOH HOH . J 7 HOH A 47 447 94 HOH HOH . J 7 HOH A 48 448 148 HOH HOH . J 7 HOH A 49 449 14 HOH HOH . J 7 HOH A 50 450 100 HOH HOH . J 7 HOH A 51 451 11 HOH HOH . J 7 HOH A 52 452 160 HOH HOH . J 7 HOH A 53 453 150 HOH HOH . J 7 HOH A 54 454 9 HOH HOH . J 7 HOH A 55 455 200 HOH HOH . J 7 HOH A 56 456 99 HOH HOH . J 7 HOH A 57 457 12 HOH HOH . J 7 HOH A 58 458 182 HOH HOH . J 7 HOH A 59 459 15 HOH HOH . J 7 HOH A 60 460 114 HOH HOH . J 7 HOH A 61 461 162 HOH HOH . J 7 HOH A 62 462 131 HOH HOH . J 7 HOH A 63 463 87 HOH HOH . J 7 HOH A 64 464 89 HOH HOH . J 7 HOH A 65 465 161 HOH HOH . J 7 HOH A 66 466 156 HOH HOH . J 7 HOH A 67 467 107 HOH HOH . J 7 HOH A 68 468 133 HOH HOH . J 7 HOH A 69 469 172 HOH HOH . J 7 HOH A 70 470 194 HOH HOH . J 7 HOH A 71 471 192 HOH HOH . J 7 HOH A 72 472 222 HOH HOH . J 7 HOH A 73 473 76 HOH HOH . J 7 HOH A 74 474 187 HOH HOH . J 7 HOH A 75 475 146 HOH HOH . J 7 HOH A 76 476 10 HOH HOH . J 7 HOH A 77 477 214 HOH HOH . J 7 HOH A 78 478 184 HOH HOH . J 7 HOH A 79 479 132 HOH HOH . J 7 HOH A 80 480 41 HOH HOH . J 7 HOH A 81 481 19 HOH HOH . J 7 HOH A 82 482 5 HOH HOH . J 7 HOH A 83 483 169 HOH HOH . J 7 HOH A 84 484 6 HOH HOH . J 7 HOH A 85 485 72 HOH HOH . J 7 HOH A 86 486 190 HOH HOH . J 7 HOH A 87 487 104 HOH HOH . J 7 HOH A 88 488 73 HOH HOH . J 7 HOH A 89 489 66 HOH HOH . J 7 HOH A 90 490 64 HOH HOH . J 7 HOH A 91 491 110 HOH HOH . J 7 HOH A 92 492 48 HOH HOH . J 7 HOH A 93 493 29 HOH HOH . J 7 HOH A 94 494 25 HOH HOH . J 7 HOH A 95 495 83 HOH HOH . J 7 HOH A 96 496 38 HOH HOH . J 7 HOH A 97 497 16 HOH HOH . J 7 HOH A 98 498 158 HOH HOH . J 7 HOH A 99 499 154 HOH HOH . J 7 HOH A 100 500 53 HOH HOH . J 7 HOH A 101 501 109 HOH HOH . J 7 HOH A 102 502 32 HOH HOH . J 7 HOH A 103 503 213 HOH HOH . J 7 HOH A 104 504 2 HOH HOH . J 7 HOH A 105 505 124 HOH HOH . J 7 HOH A 106 506 244 HOH HOH . J 7 HOH A 107 507 81 HOH HOH . J 7 HOH A 108 508 23 HOH HOH . J 7 HOH A 109 509 27 HOH HOH . J 7 HOH A 110 510 45 HOH HOH . J 7 HOH A 111 511 20 HOH HOH . J 7 HOH A 112 512 61 HOH HOH . J 7 HOH A 113 513 164 HOH HOH . J 7 HOH A 114 514 1 HOH HOH . J 7 HOH A 115 515 51 HOH HOH . J 7 HOH A 116 516 68 HOH HOH . J 7 HOH A 117 517 121 HOH HOH . J 7 HOH A 118 518 186 HOH HOH . J 7 HOH A 119 519 225 HOH HOH . J 7 HOH A 120 520 189 HOH HOH . J 7 HOH A 121 521 101 HOH HOH . J 7 HOH A 122 522 18 HOH HOH . J 7 HOH A 123 523 49 HOH HOH . J 7 HOH A 124 524 166 HOH HOH . J 7 HOH A 125 525 17 HOH HOH . J 7 HOH A 126 526 39 HOH HOH . J 7 HOH A 127 527 57 HOH HOH . J 7 HOH A 128 528 74 HOH HOH . J 7 HOH A 129 529 86 HOH HOH . J 7 HOH A 130 530 139 HOH HOH . J 7 HOH A 131 531 92 HOH HOH . J 7 HOH A 132 532 44 HOH HOH . J 7 HOH A 133 533 105 HOH HOH . J 7 HOH A 134 534 30 HOH HOH . J 7 HOH A 135 535 84 HOH HOH . J 7 HOH A 136 536 108 HOH HOH . J 7 HOH A 137 537 136 HOH HOH . J 7 HOH A 138 538 31 HOH HOH . J 7 HOH A 139 539 111 HOH HOH . J 7 HOH A 140 540 69 HOH HOH . J 7 HOH A 141 541 102 HOH HOH . J 7 HOH A 142 542 37 HOH HOH . J 7 HOH A 143 543 209 HOH HOH . J 7 HOH A 144 544 67 HOH HOH . J 7 HOH A 145 545 119 HOH HOH . J 7 HOH A 146 546 149 HOH HOH . J 7 HOH A 147 547 198 HOH HOH . J 7 HOH A 148 548 46 HOH HOH . J 7 HOH A 149 549 97 HOH HOH . J 7 HOH A 150 550 21 HOH HOH . J 7 HOH A 151 551 212 HOH HOH . J 7 HOH A 152 552 90 HOH HOH . J 7 HOH A 153 553 77 HOH HOH . J 7 HOH A 154 554 143 HOH HOH . J 7 HOH A 155 555 85 HOH HOH . J 7 HOH A 156 556 237 HOH HOH . J 7 HOH A 157 557 197 HOH HOH . J 7 HOH A 158 558 236 HOH HOH . J 7 HOH A 159 559 232 HOH HOH . J 7 HOH A 160 560 78 HOH HOH . J 7 HOH A 161 561 167 HOH HOH . J 7 HOH A 162 562 127 HOH HOH . J 7 HOH A 163 563 196 HOH HOH . J 7 HOH A 164 564 153 HOH HOH . J 7 HOH A 165 565 195 HOH HOH . J 7 HOH A 166 566 141 HOH HOH . J 7 HOH A 167 567 178 HOH HOH . J 7 HOH A 168 568 221 HOH HOH . J 7 HOH A 169 569 168 HOH HOH . J 7 HOH A 170 570 36 HOH HOH . J 7 HOH A 171 571 216 HOH HOH . J 7 HOH A 172 572 145 HOH HOH . J 7 HOH A 173 573 13 HOH HOH . J 7 HOH A 174 574 43 HOH HOH . J 7 HOH A 175 575 56 HOH HOH . J 7 HOH A 176 576 35 HOH HOH . J 7 HOH A 177 577 239 HOH HOH . J 7 HOH A 178 578 188 HOH HOH . J 7 HOH A 179 579 82 HOH HOH . J 7 HOH A 180 580 50 HOH HOH . J 7 HOH A 181 581 113 HOH HOH . J 7 HOH A 182 582 98 HOH HOH . J 7 HOH A 183 583 144 HOH HOH . J 7 HOH A 184 584 230 HOH HOH . J 7 HOH A 185 585 4 HOH HOH . J 7 HOH A 186 586 47 HOH HOH . J 7 HOH A 187 587 138 HOH HOH . J 7 HOH A 188 588 206 HOH HOH . J 7 HOH A 189 589 130 HOH HOH . J 7 HOH A 190 590 63 HOH HOH . J 7 HOH A 191 591 147 HOH HOH . J 7 HOH A 192 592 142 HOH HOH . J 7 HOH A 193 593 235 HOH HOH . J 7 HOH A 194 594 165 HOH HOH . J 7 HOH A 195 595 220 HOH HOH . J 7 HOH A 196 596 217 HOH HOH . J 7 HOH A 197 597 123 HOH HOH . J 7 HOH A 198 598 177 HOH HOH . J 7 HOH A 199 599 174 HOH HOH . J 7 HOH A 200 600 208 HOH HOH . J 7 HOH A 201 601 207 HOH HOH . J 7 HOH A 202 602 175 HOH HOH . J 7 HOH A 203 603 79 HOH HOH . J 7 HOH A 204 604 229 HOH HOH . J 7 HOH A 205 605 112 HOH HOH . J 7 HOH A 206 606 191 HOH HOH . J 7 HOH A 207 607 215 HOH HOH . J 7 HOH A 208 608 219 HOH HOH . J 7 HOH A 209 609 218 HOH HOH . J 7 HOH A 210 610 103 HOH HOH . J 7 HOH A 211 611 202 HOH HOH . J 7 HOH A 212 612 179 HOH HOH . J 7 HOH A 213 613 134 HOH HOH . J 7 HOH A 214 614 238 HOH HOH . J 7 HOH A 215 615 241 HOH HOH . J 7 HOH A 216 616 242 HOH HOH . J 7 HOH A 217 617 159 HOH HOH . J 7 HOH A 218 618 95 HOH HOH . J 7 HOH A 219 619 233 HOH HOH . J 7 HOH A 220 620 117 HOH HOH . J 7 HOH A 221 621 54 HOH HOH . J 7 HOH A 222 622 129 HOH HOH . J 7 HOH A 223 623 205 HOH HOH . J 7 HOH A 224 624 211 HOH HOH . J 7 HOH A 225 625 120 HOH HOH . J 7 HOH A 226 626 170 HOH HOH . J 7 HOH A 227 627 176 HOH HOH . J 7 HOH A 228 628 210 HOH HOH . J 7 HOH A 229 629 106 HOH HOH . J 7 HOH A 230 630 60 HOH HOH . J 7 HOH A 231 631 96 HOH HOH . J 7 HOH A 232 632 71 HOH HOH . J 7 HOH A 233 633 65 HOH HOH . J 7 HOH A 234 634 227 HOH HOH . J 7 HOH A 235 635 223 HOH HOH . J 7 HOH A 236 636 75 HOH HOH . J 7 HOH A 237 637 80 HOH HOH . J 7 HOH A 238 638 181 HOH HOH . J 7 HOH A 239 639 203 HOH HOH . J 7 HOH A 240 640 88 HOH HOH . J 7 HOH A 241 641 201 HOH HOH . J 7 HOH A 242 642 93 HOH HOH . J 7 HOH A 243 643 58 HOH HOH . J 7 HOH A 244 644 224 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 . . . H 5 40.904 -4.66 1.296 1 19.13 ? N SAM 307 A 1 HETATM 2 C CA SAM . . . H 5 41.44 -4.956 -0.04 1 17.58 ? CA SAM 307 A 1 HETATM 3 C C SAM . . . H 5 42.418 -6.117 0.044 1 23.25 ? C SAM 307 A 1 HETATM 4 O O SAM . . . H 5 42.851 -6.669 -0.978 1 22.8 ? O SAM 307 A 1 HETATM 5 O OXT SAM . . . H 5 42.77 -6.542 1.147 1 21.91 ? OXT SAM 307 A 1 HETATM 6 C CB SAM . . . H 5 42.025 -3.716 -0.709 1 23.67 ? CB SAM 307 A 1 HETATM 7 C CG SAM . . . H 5 40.982 -2.609 -0.83 0.89 24.16 ? CG SAM 307 A 1 HETATM 8 S SD SAM . . . H 5 41.341 -1.399 -2.128 0.61 25.42 ? SD SAM 307 A 1 HETATM 9 C CE SAM . . . H 5 42.145 -0.086 -1.173 0.75 36.18 ? CE SAM 307 A 1 HETATM 10 C C5' SAM . . . H 5 39.685 -0.724 -2.394 1 23.85 ? C5' SAM 307 A 1 HETATM 11 C C4' SAM . . . H 5 38.947 -1.311 -3.586 1 19.38 ? C4' SAM 307 A 1 HETATM 12 O O4' SAM . . . H 5 37.682 -0.682 -3.585 1 20.19 ? O4' SAM 307 A 1 HETATM 13 C C3' SAM . . . H 5 39.57 -0.99 -4.944 1 20.85 ? C3' SAM 307 A 1 HETATM 14 O O3' SAM . . . H 5 39.824 -2.195 -5.637 1 22.36 ? O3' SAM 307 A 1 HETATM 15 C C2' SAM . . . H 5 38.521 -0.175 -5.678 1 23.93 ? C2' SAM 307 A 1 HETATM 16 O O2' SAM . . . H 5 38.404 -0.48 -7.059 1 23.56 ? O2' SAM 307 A 1 HETATM 17 C C1' SAM . . . H 5 37.249 -0.519 -4.921 1 20.13 ? C1' SAM 307 A 1 HETATM 18 N N9 SAM . . . H 5 36.234 0.521 -5.076 1 21.01 ? N9 SAM 307 A 1 HETATM 19 C C8 SAM . . . H 5 36.391 1.888 -5.08 1 22.89 ? C8 SAM 307 A 1 HETATM 20 N N7 SAM . . . H 5 35.172 2.445 -5.26 1 20.96 ? N7 SAM 307 A 1 HETATM 21 C C5 SAM . . . H 5 34.254 1.445 -5.39 1 18.43 ? C5 SAM 307 A 1 HETATM 22 C C6 SAM . . . H 5 32.883 1.441 -5.583 1 23.59 ? C6 SAM 307 A 1 HETATM 23 N N6 SAM . . . H 5 32.213 2.576 -5.728 1 23.32 ? N6 SAM 307 A 1 HETATM 24 N N1 SAM . . . H 5 32.218 0.239 -5.664 1 19.96 ? N1 SAM 307 A 1 HETATM 25 C C2 SAM . . . H 5 32.903 -0.944 -5.533 1 20.03 ? C2 SAM 307 A 1 HETATM 26 N N3 SAM . . . H 5 34.262 -0.945 -5.345 1 18.04 ? N3 SAM 307 A 1 HETATM 27 C C4 SAM . . . H 5 34.919 0.243 -5.267 1 17 ? C4 SAM 307 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #