data_5WYQ # _model_server_result.job_id irxlWJIfqQ-AxEI_M4izxg _model_server_result.datetime_utc '2024-11-04 22:49:59' _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 5wyq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 5WYQ # _exptl.entry_id 5WYQ _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 2 _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 120 _cell.entry_id 5WYQ _cell.length_a 85.896 _cell.length_b 85.896 _cell.length_c 147.838 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WYQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 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 _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 ? 2 C N N ? 2 D N 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 277 n n N HN1 SAM sing 278 n n N HN2 SAM sing 279 n n CA C SAM sing 280 n n CA CB SAM sing 281 n n CA HA SAM sing 282 n n C O SAM doub 283 n n C OXT SAM sing 284 n n CB CG SAM sing 285 n n CB HB1 SAM sing 286 n n CB HB2 SAM sing 287 n n CG SD SAM sing 288 n n CG HG1 SAM sing 289 n n CG HG2 SAM sing 290 n n SD CE SAM sing 291 n n SD C5' SAM sing 292 n n CE HE1 SAM sing 293 n n CE HE2 SAM sing 294 n n CE HE3 SAM sing 295 n n C5' C4' SAM sing 296 n n C5' "H5'1" SAM sing 297 n n C5' "H5'2" SAM sing 298 n n C4' O4' SAM sing 299 n n C4' C3' SAM sing 300 n n C4' H4' SAM sing 301 n n O4' C1' SAM sing 302 n n C3' O3' SAM sing 303 n n C3' C2' SAM sing 304 n n C3' H3' SAM sing 305 n n O3' HO3' SAM sing 306 n n C2' O2' SAM sing 307 n n C2' C1' SAM sing 308 n n C2' H2' SAM sing 309 n n O2' HO2' SAM sing 310 n n C1' N9 SAM sing 311 n n C1' H1' SAM sing 312 n n N9 C8 SAM sing 313 n y N9 C4 SAM sing 314 n y C8 N7 SAM doub 315 n y C8 H8 SAM sing 316 n n N7 C5 SAM sing 317 n y C5 C6 SAM sing 318 n y C5 C4 SAM doub 319 n y C6 N6 SAM sing 320 n n C6 N1 SAM doub 321 n y N6 HN61 SAM sing 322 n n N6 HN62 SAM sing 323 n n N1 C2 SAM sing 324 n y C2 N3 SAM doub 325 n y C2 H2 SAM sing 326 n n N3 C4 SAM sing 327 n y # _atom_sites.entry_id 5WYQ _atom_sites.fract_transf_matrix[1][1] 0.011642 _atom_sites.fract_transf_matrix[1][2] 0.006722 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013443 _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] 0.006764 _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 2 SAM A 1 401 401 SAM SAM . D 2 SAM B 1 301 402 SAM SAM . E 3 HOH A 1 501 1 HOH HOH . E 3 HOH A 2 502 201 HOH HOH . E 3 HOH A 3 503 34 HOH HOH . E 3 HOH A 4 504 43 HOH HOH . E 3 HOH A 5 505 15 HOH HOH . E 3 HOH A 6 506 18 HOH HOH . E 3 HOH A 7 507 28 HOH HOH . E 3 HOH A 8 508 10 HOH HOH . E 3 HOH A 9 509 22 HOH HOH . E 3 HOH A 10 510 51 HOH HOH . E 3 HOH A 11 511 17 HOH HOH . E 3 HOH A 12 512 89 HOH HOH . E 3 HOH A 13 513 65 HOH HOH . E 3 HOH A 14 514 49 HOH HOH . E 3 HOH A 15 515 5 HOH HOH . E 3 HOH A 16 516 149 HOH HOH . E 3 HOH A 17 517 145 HOH HOH . E 3 HOH A 18 518 48 HOH HOH . E 3 HOH A 19 519 96 HOH HOH . E 3 HOH A 20 520 139 HOH HOH . E 3 HOH A 21 521 199 HOH HOH . E 3 HOH A 22 522 8 HOH HOH . E 3 HOH A 23 523 23 HOH HOH . E 3 HOH A 24 524 9 HOH HOH . E 3 HOH A 25 525 24 HOH HOH . E 3 HOH A 26 526 27 HOH HOH . E 3 HOH A 27 527 69 HOH HOH . E 3 HOH A 28 528 47 HOH HOH . E 3 HOH A 29 529 21 HOH HOH . E 3 HOH A 30 530 141 HOH HOH . E 3 HOH A 31 531 93 HOH HOH . E 3 HOH A 32 532 36 HOH HOH . E 3 HOH A 33 533 39 HOH HOH . E 3 HOH A 34 534 138 HOH HOH . E 3 HOH A 35 535 25 HOH HOH . E 3 HOH A 36 536 55 HOH HOH . E 3 HOH A 37 537 64 HOH HOH . E 3 HOH A 38 538 128 HOH HOH . E 3 HOH A 39 539 60 HOH HOH . E 3 HOH A 40 540 73 HOH HOH . E 3 HOH A 41 541 14 HOH HOH . E 3 HOH A 42 542 204 HOH HOH . E 3 HOH A 43 543 13 HOH HOH . E 3 HOH A 44 544 63 HOH HOH . E 3 HOH A 45 545 191 HOH HOH . E 3 HOH A 46 546 45 HOH HOH . E 3 HOH A 47 547 129 HOH HOH . E 3 HOH A 48 548 118 HOH HOH . E 3 HOH A 49 549 16 HOH HOH . E 3 HOH A 50 550 30 HOH HOH . E 3 HOH A 51 551 56 HOH HOH . E 3 HOH A 52 552 70 HOH HOH . E 3 HOH A 53 553 195 HOH HOH . E 3 HOH A 54 554 58 HOH HOH . E 3 HOH A 55 555 133 HOH HOH . E 3 HOH A 56 556 115 HOH HOH . E 3 HOH A 57 557 79 HOH HOH . E 3 HOH A 58 558 52 HOH HOH . E 3 HOH A 59 559 164 HOH HOH . E 3 HOH A 60 560 111 HOH HOH . E 3 HOH A 61 561 178 HOH HOH . E 3 HOH A 62 562 140 HOH HOH . E 3 HOH A 63 563 125 HOH HOH . E 3 HOH A 64 564 172 HOH HOH . E 3 HOH A 65 565 83 HOH HOH . E 3 HOH A 66 566 168 HOH HOH . E 3 HOH A 67 567 54 HOH HOH . E 3 HOH A 68 568 81 HOH HOH . E 3 HOH A 69 569 122 HOH HOH . E 3 HOH A 70 570 84 HOH HOH . E 3 HOH A 71 571 171 HOH HOH . E 3 HOH A 72 572 19 HOH HOH . E 3 HOH A 73 573 110 HOH HOH . E 3 HOH A 74 574 99 HOH HOH . E 3 HOH A 75 575 71 HOH HOH . E 3 HOH A 76 576 105 HOH HOH . E 3 HOH A 77 577 101 HOH HOH . E 3 HOH A 78 578 76 HOH HOH . E 3 HOH A 79 579 120 HOH HOH . E 3 HOH A 80 580 85 HOH HOH . E 3 HOH A 81 581 119 HOH HOH . E 3 HOH A 82 582 198 HOH HOH . E 3 HOH A 83 583 109 HOH HOH . E 3 HOH A 84 584 100 HOH HOH . E 3 HOH A 85 585 167 HOH HOH . E 3 HOH A 86 586 203 HOH HOH . F 3 HOH B 1 401 40 HOH HOH . F 3 HOH B 2 402 38 HOH HOH . F 3 HOH B 3 403 37 HOH HOH . F 3 HOH B 4 404 142 HOH HOH . F 3 HOH B 5 405 176 HOH HOH . F 3 HOH B 6 406 35 HOH HOH . F 3 HOH B 7 407 74 HOH HOH . F 3 HOH B 8 408 66 HOH HOH . F 3 HOH B 9 409 7 HOH HOH . F 3 HOH B 10 410 130 HOH HOH . F 3 HOH B 11 411 86 HOH HOH . F 3 HOH B 12 412 62 HOH HOH . F 3 HOH B 13 413 181 HOH HOH . F 3 HOH B 14 414 4 HOH HOH . F 3 HOH B 15 415 152 HOH HOH . F 3 HOH B 16 416 97 HOH HOH . F 3 HOH B 17 417 206 HOH HOH . F 3 HOH B 18 418 202 HOH HOH . F 3 HOH B 19 419 12 HOH HOH . F 3 HOH B 20 420 127 HOH HOH . F 3 HOH B 21 421 155 HOH HOH . F 3 HOH B 22 422 32 HOH HOH . F 3 HOH B 23 423 33 HOH HOH . F 3 HOH B 24 424 107 HOH HOH . F 3 HOH B 25 425 67 HOH HOH . F 3 HOH B 26 426 136 HOH HOH . F 3 HOH B 27 427 50 HOH HOH . F 3 HOH B 28 428 3 HOH HOH . F 3 HOH B 29 429 59 HOH HOH . F 3 HOH B 30 430 2 HOH HOH . F 3 HOH B 31 431 6 HOH HOH . F 3 HOH B 32 432 31 HOH HOH . F 3 HOH B 33 433 143 HOH HOH . F 3 HOH B 34 434 146 HOH HOH . F 3 HOH B 35 435 82 HOH HOH . F 3 HOH B 36 436 26 HOH HOH . F 3 HOH B 37 437 106 HOH HOH . F 3 HOH B 38 438 173 HOH HOH . F 3 HOH B 39 439 41 HOH HOH . F 3 HOH B 40 440 11 HOH HOH . F 3 HOH B 41 441 20 HOH HOH . F 3 HOH B 42 442 169 HOH HOH . F 3 HOH B 43 443 44 HOH HOH . F 3 HOH B 44 444 162 HOH HOH . F 3 HOH B 45 445 91 HOH HOH . F 3 HOH B 46 446 68 HOH HOH . F 3 HOH B 47 447 154 HOH HOH . F 3 HOH B 48 448 188 HOH HOH . F 3 HOH B 49 449 160 HOH HOH . F 3 HOH B 50 450 163 HOH HOH . F 3 HOH B 51 451 88 HOH HOH . F 3 HOH B 52 452 72 HOH HOH . F 3 HOH B 53 453 190 HOH HOH . F 3 HOH B 54 454 126 HOH HOH . F 3 HOH B 55 455 192 HOH HOH . F 3 HOH B 56 456 61 HOH HOH . F 3 HOH B 57 457 161 HOH HOH . F 3 HOH B 58 458 151 HOH HOH . F 3 HOH B 59 459 46 HOH HOH . F 3 HOH B 60 460 112 HOH HOH . F 3 HOH B 61 461 113 HOH HOH . F 3 HOH B 62 462 29 HOH HOH . F 3 HOH B 63 463 117 HOH HOH . F 3 HOH B 64 464 57 HOH HOH . F 3 HOH B 65 465 177 HOH HOH . F 3 HOH B 66 466 197 HOH HOH . F 3 HOH B 67 467 186 HOH HOH . F 3 HOH B 68 468 153 HOH HOH . F 3 HOH B 69 469 42 HOH HOH . F 3 HOH B 70 470 102 HOH HOH . F 3 HOH B 71 471 207 HOH HOH . F 3 HOH B 72 472 108 HOH HOH . F 3 HOH B 73 473 98 HOH HOH . F 3 HOH B 74 474 158 HOH HOH . F 3 HOH B 75 475 87 HOH HOH . F 3 HOH B 76 476 114 HOH HOH . F 3 HOH B 77 477 77 HOH HOH . F 3 HOH B 78 478 131 HOH HOH . F 3 HOH B 79 479 137 HOH HOH . F 3 HOH B 80 480 189 HOH HOH . F 3 HOH B 81 481 104 HOH HOH . F 3 HOH B 82 482 103 HOH HOH . F 3 HOH B 83 483 78 HOH HOH . F 3 HOH B 84 484 205 HOH HOH . F 3 HOH B 85 485 200 HOH HOH . F 3 HOH B 86 486 170 HOH HOH . F 3 HOH B 87 487 95 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 . . . D 2 -36.417 29.263 -7.774 1 85.85 ? N SAM 301 B 1 HETATM 2 C CA SAM . . . D 2 -37.024 29.122 -6.433 1 84.65 ? CA SAM 301 B 1 HETATM 3 C C SAM . . . D 2 -35.908 29.151 -5.372 1 85.5 ? C SAM 301 B 1 HETATM 4 O O SAM . . . D 2 -35.161 28.151 -5.26 1 87.02 ? O SAM 301 B 1 HETATM 5 O OXT SAM . . . D 2 -35.772 30.224 -4.748 1 84.91 ? OXT SAM 301 B 1 HETATM 6 C CB SAM . . . D 2 -38.03 27.94 -6.263 1 81.75 ? CB SAM 301 B 1 HETATM 7 C CG SAM . . . D 2 -37.545 26.649 -6.964 1 79.61 ? CG SAM 301 B 1 HETATM 8 S SD SAM . . . D 2 -38.584 25.146 -6.678 1 74.38 ? SD SAM 301 B 1 HETATM 9 C CE SAM . . . D 2 -40.278 25.569 -6.331 1 75.35 ? CE SAM 301 B 1 HETATM 10 C C5' SAM . . . D 2 -37.881 24.024 -5.405 1 68.74 ? C5' SAM 301 B 1 HETATM 11 C C4' SAM . . . D 2 -36.747 23.15 -5.977 1 64.13 ? C4' SAM 301 B 1 HETATM 12 O O4' SAM . . . D 2 -36.88 22.84 -7.371 1 64.13 ? O4' SAM 301 B 1 HETATM 13 C C3' SAM . . . D 2 -35.416 23.849 -5.855 1 62.09 ? C3' SAM 301 B 1 HETATM 14 O O3' SAM . . . D 2 -34.895 23.552 -4.573 1 58.34 ? O3' SAM 301 B 1 HETATM 15 C C2' SAM . . . D 2 -34.545 23.201 -6.931 1 63.91 ? C2' SAM 301 B 1 HETATM 16 O O2' SAM . . . D 2 -33.807 22.074 -6.354 1 63.74 ? O2' SAM 301 B 1 HETATM 17 C C1' SAM . . . D 2 -35.553 22.652 -7.953 1 60.56 ? C1' SAM 301 B 1 HETATM 18 N N9 SAM . . . D 2 -35.499 23.25 -9.349 1 49.56 ? N9 SAM 301 B 1 HETATM 19 C C8 SAM . . . D 2 -36.541 23.919 -9.862 1 47.16 ? C8 SAM 301 B 1 HETATM 20 N N7 SAM . . . D 2 -36.261 24.253 -11.119 1 47.7 ? N7 SAM 301 B 1 HETATM 21 C C5 SAM . . . D 2 -35.028 23.802 -11.417 1 44.42 ? C5 SAM 301 B 1 HETATM 22 C C6 SAM . . . D 2 -34.287 23.896 -12.541 1 42.72 ? C6 SAM 301 B 1 HETATM 23 N N6 SAM . . . D 2 -34.839 24.526 -13.614 1 39.46 ? N6 SAM 301 B 1 HETATM 24 N N1 SAM . . . D 2 -33.049 23.369 -12.621 1 42.1 ? N1 SAM 301 B 1 HETATM 25 C C2 SAM . . . D 2 -32.534 22.677 -11.511 1 43.43 ? C2 SAM 301 B 1 HETATM 26 N N3 SAM . . . D 2 -33.323 22.608 -10.337 1 44.94 ? N3 SAM 301 B 1 HETATM 27 C C4 SAM . . . D 2 -34.556 23.175 -10.314 1 47.08 ? C4 SAM 301 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #