data_7YN2 # _model_server_result.job_id jfj2p2VYUJ31kHOKVrDflA _model_server_result.datetime_utc '2024-11-27 03:14:42' _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 7yn2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7YN2 # _exptl.entry_id 7YN2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 253.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R,4S,5R,6R)-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-6-methylsulfanyl-oxane-3,4,5-triol _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 91.103 _cell.angle_gamma 90 _cell.entry_id 7YN2 _cell.length_a 192.059 _cell.length_b 52.903 _cell.length_c 90.938 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YN2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 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 _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 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H19 N O5 S' _chem_comp.formula_weight 253.316 _chem_comp.id IYV _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R,4S,5R,6R)-2-[(1R,2R)-1-azanyl-2-oxidanyl-propyl]-6-methylsulfanyl-oxane-3,4,5-triol _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 OAN CAB IYV sing 173 n n OAL CAA IYV sing 174 n n CAB CAA IYV sing 175 n n CAB CAC IYV sing 176 n n OAJ CAC IYV sing 177 n n CAA CAF IYV sing 178 n n CAC CAD IYV sing 179 n n OAP CAH IYV sing 180 n n CAF OAE IYV sing 181 n n CAF CAG IYV sing 182 n n CAD OAE IYV sing 183 n n CAD SAK IYV sing 184 n n CAH CAG IYV sing 185 n n CAH CAI IYV sing 186 n n CAG NAO IYV sing 187 n n SAK CAM IYV sing 188 n n CAA H1 IYV sing 189 n n CAB H2 IYV sing 190 n n CAC H3 IYV sing 191 n n CAD H4 IYV sing 192 n n CAF H5 IYV sing 193 n n CAG H6 IYV sing 194 n n CAH H7 IYV sing 195 n n CAI H8 IYV sing 196 n n CAI H9 IYV sing 197 n n CAI H10 IYV sing 198 n n CAM H11 IYV sing 199 n n CAM H12 IYV sing 200 n n CAM H13 IYV sing 201 n n NAO H14 IYV sing 202 n n NAO H15 IYV sing 203 n n OAJ H17 IYV sing 204 n n OAL H18 IYV sing 205 n n OAN H19 IYV sing 206 n n OAP H20 IYV sing 207 n n # _atom_sites.entry_id 7YN2 _atom_sites.fract_transf_matrix[1][1] 0.005207 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.0001 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018903 _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] 0.010999 _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 IYV A 1 401 401 IYV UNL . D 3 HOH A 1 501 197 HOH HOH . D 3 HOH A 2 502 220 HOH HOH . D 3 HOH A 3 503 266 HOH HOH . D 3 HOH A 4 504 207 HOH HOH . D 3 HOH A 5 505 169 HOH HOH . D 3 HOH A 6 506 101 HOH HOH . D 3 HOH A 7 507 47 HOH HOH . D 3 HOH A 8 508 29 HOH HOH . D 3 HOH A 9 509 201 HOH HOH . D 3 HOH A 10 510 157 HOH HOH . D 3 HOH A 11 511 54 HOH HOH . D 3 HOH A 12 512 251 HOH HOH . D 3 HOH A 13 513 46 HOH HOH . D 3 HOH A 14 514 144 HOH HOH . D 3 HOH A 15 515 39 HOH HOH . D 3 HOH A 16 516 131 HOH HOH . D 3 HOH A 17 517 179 HOH HOH . D 3 HOH A 18 518 189 HOH HOH . D 3 HOH A 19 519 62 HOH HOH . D 3 HOH A 20 520 92 HOH HOH . D 3 HOH A 21 521 185 HOH HOH . D 3 HOH A 22 522 239 HOH HOH . D 3 HOH A 23 523 25 HOH HOH . D 3 HOH A 24 524 52 HOH HOH . D 3 HOH A 25 525 238 HOH HOH . D 3 HOH A 26 526 40 HOH HOH . D 3 HOH A 27 527 153 HOH HOH . D 3 HOH A 28 528 159 HOH HOH . D 3 HOH A 29 529 93 HOH HOH . D 3 HOH A 30 530 51 HOH HOH . D 3 HOH A 31 531 113 HOH HOH . D 3 HOH A 32 532 86 HOH HOH . D 3 HOH A 33 533 116 HOH HOH . D 3 HOH A 34 534 80 HOH HOH . D 3 HOH A 35 535 231 HOH HOH . D 3 HOH A 36 536 60 HOH HOH . D 3 HOH A 37 537 72 HOH HOH . D 3 HOH A 38 538 56 HOH HOH . D 3 HOH A 39 539 16 HOH HOH . D 3 HOH A 40 540 31 HOH HOH . D 3 HOH A 41 541 9 HOH HOH . D 3 HOH A 42 542 123 HOH HOH . D 3 HOH A 43 543 217 HOH HOH . D 3 HOH A 44 544 22 HOH HOH . D 3 HOH A 45 545 162 HOH HOH . D 3 HOH A 46 546 73 HOH HOH . D 3 HOH A 47 547 206 HOH HOH . D 3 HOH A 48 548 176 HOH HOH . D 3 HOH A 49 549 110 HOH HOH . D 3 HOH A 50 550 96 HOH HOH . D 3 HOH A 51 551 172 HOH HOH . D 3 HOH A 52 552 15 HOH HOH . D 3 HOH A 53 553 149 HOH HOH . D 3 HOH A 54 554 7 HOH HOH . D 3 HOH A 55 555 286 HOH HOH . D 3 HOH A 56 556 77 HOH HOH . D 3 HOH A 57 557 45 HOH HOH . D 3 HOH A 58 558 142 HOH HOH . D 3 HOH A 59 559 58 HOH HOH . D 3 HOH A 60 560 38 HOH HOH . D 3 HOH A 61 561 287 HOH HOH . D 3 HOH A 62 562 193 HOH HOH . D 3 HOH A 63 563 192 HOH HOH . D 3 HOH A 64 564 99 HOH HOH . D 3 HOH A 65 565 190 HOH HOH . D 3 HOH A 66 566 12 HOH HOH . D 3 HOH A 67 567 216 HOH HOH . D 3 HOH A 68 568 82 HOH HOH . D 3 HOH A 69 569 17 HOH HOH . D 3 HOH A 70 570 27 HOH HOH . D 3 HOH A 71 571 10 HOH HOH . D 3 HOH A 72 572 181 HOH HOH . D 3 HOH A 73 573 128 HOH HOH . D 3 HOH A 74 574 78 HOH HOH . D 3 HOH A 75 575 240 HOH HOH . D 3 HOH A 76 576 139 HOH HOH . D 3 HOH A 77 577 264 HOH HOH . D 3 HOH A 78 578 253 HOH HOH . D 3 HOH A 79 579 151 HOH HOH . D 3 HOH A 80 580 228 HOH HOH . D 3 HOH A 81 581 232 HOH HOH . D 3 HOH A 82 582 280 HOH HOH . D 3 HOH A 83 583 262 HOH HOH . D 3 HOH A 84 584 111 HOH HOH . D 3 HOH A 85 585 75 HOH HOH . D 3 HOH A 86 586 200 HOH HOH . D 3 HOH A 87 587 97 HOH HOH . D 3 HOH A 88 588 241 HOH HOH . D 3 HOH A 89 589 71 HOH HOH . D 3 HOH A 90 590 245 HOH HOH . D 3 HOH A 91 591 109 HOH HOH . D 3 HOH A 92 592 87 HOH HOH . D 3 HOH A 93 593 269 HOH HOH . D 3 HOH A 94 594 271 HOH HOH . D 3 HOH A 95 595 83 HOH HOH . D 3 HOH A 96 596 182 HOH HOH . D 3 HOH A 97 597 63 HOH HOH . D 3 HOH A 98 598 117 HOH HOH . D 3 HOH A 99 599 214 HOH HOH . D 3 HOH A 100 600 140 HOH HOH . D 3 HOH A 101 601 145 HOH HOH . D 3 HOH A 102 602 254 HOH HOH . D 3 HOH A 103 603 222 HOH HOH . D 3 HOH A 104 604 129 HOH HOH . D 3 HOH A 105 605 100 HOH HOH . D 3 HOH A 106 606 226 HOH HOH . D 3 HOH A 107 607 150 HOH HOH . D 3 HOH A 108 608 166 HOH HOH . D 3 HOH A 109 609 122 HOH HOH . D 3 HOH A 110 610 20 HOH HOH . D 3 HOH A 111 611 273 HOH HOH . D 3 HOH A 112 612 37 HOH HOH . D 3 HOH A 113 613 118 HOH HOH . D 3 HOH A 114 614 225 HOH HOH . D 3 HOH A 115 615 242 HOH HOH . D 3 HOH A 116 616 270 HOH HOH . D 3 HOH A 117 617 265 HOH HOH . D 3 HOH A 118 618 174 HOH HOH . D 3 HOH A 119 619 160 HOH HOH . D 3 HOH A 120 620 3 HOH HOH . D 3 HOH A 121 621 4 HOH HOH . D 3 HOH A 122 622 1 HOH HOH . D 3 HOH A 123 623 105 HOH HOH . D 3 HOH A 124 624 218 HOH HOH . D 3 HOH A 125 625 209 HOH HOH . D 3 HOH A 126 626 248 HOH HOH . D 3 HOH A 127 627 227 HOH HOH . D 3 HOH A 128 628 285 HOH HOH . D 3 HOH A 129 629 258 HOH HOH . D 3 HOH A 130 630 127 HOH HOH . D 3 HOH A 131 631 198 HOH HOH . D 3 HOH A 132 632 257 HOH HOH . D 3 HOH A 133 633 132 HOH HOH . D 3 HOH A 134 634 184 HOH HOH . D 3 HOH A 135 635 224 HOH HOH . D 3 HOH A 136 636 259 HOH HOH . D 3 HOH A 137 637 244 HOH HOH . D 3 HOH A 138 638 115 HOH HOH . D 3 HOH A 139 639 148 HOH HOH . D 3 HOH A 140 640 152 HOH HOH . D 3 HOH A 141 641 167 HOH HOH . D 3 HOH A 142 642 163 HOH HOH . D 3 HOH A 143 643 133 HOH HOH . D 3 HOH A 144 644 210 HOH HOH . D 3 HOH A 145 645 272 HOH HOH . D 3 HOH A 146 646 288 HOH HOH . E 3 HOH B 1 401 195 HOH HOH . E 3 HOH B 2 402 26 HOH HOH . E 3 HOH B 3 403 49 HOH HOH . E 3 HOH B 4 404 11 HOH HOH . E 3 HOH B 5 405 276 HOH HOH . E 3 HOH B 6 406 8 HOH HOH . E 3 HOH B 7 407 112 HOH HOH . E 3 HOH B 8 408 48 HOH HOH . E 3 HOH B 9 409 161 HOH HOH . E 3 HOH B 10 410 6 HOH HOH . E 3 HOH B 11 411 236 HOH HOH . E 3 HOH B 12 412 199 HOH HOH . E 3 HOH B 13 413 57 HOH HOH . E 3 HOH B 14 414 53 HOH HOH . E 3 HOH B 15 415 5 HOH HOH . E 3 HOH B 16 416 235 HOH HOH . E 3 HOH B 17 417 28 HOH HOH . E 3 HOH B 18 418 59 HOH HOH . E 3 HOH B 19 419 74 HOH HOH . E 3 HOH B 20 420 64 HOH HOH . E 3 HOH B 21 421 107 HOH HOH . E 3 HOH B 22 422 154 HOH HOH . E 3 HOH B 23 423 35 HOH HOH . E 3 HOH B 24 424 34 HOH HOH . E 3 HOH B 25 425 108 HOH HOH . E 3 HOH B 26 426 146 HOH HOH . E 3 HOH B 27 427 90 HOH HOH . E 3 HOH B 28 428 19 HOH HOH . E 3 HOH B 29 429 33 HOH HOH . E 3 HOH B 30 430 180 HOH HOH . E 3 HOH B 31 431 84 HOH HOH . E 3 HOH B 32 432 187 HOH HOH . E 3 HOH B 33 433 135 HOH HOH . E 3 HOH B 34 434 66 HOH HOH . E 3 HOH B 35 435 50 HOH HOH . E 3 HOH B 36 436 119 HOH HOH . E 3 HOH B 37 437 42 HOH HOH . E 3 HOH B 38 438 43 HOH HOH . E 3 HOH B 39 439 168 HOH HOH . E 3 HOH B 40 440 143 HOH HOH . E 3 HOH B 41 441 136 HOH HOH . E 3 HOH B 42 442 170 HOH HOH . E 3 HOH B 43 443 41 HOH HOH . E 3 HOH B 44 444 2 HOH HOH . E 3 HOH B 45 445 91 HOH HOH . E 3 HOH B 46 446 155 HOH HOH . E 3 HOH B 47 447 76 HOH HOH . E 3 HOH B 48 448 138 HOH HOH . E 3 HOH B 49 449 94 HOH HOH . E 3 HOH B 50 450 243 HOH HOH . E 3 HOH B 51 451 164 HOH HOH . E 3 HOH B 52 452 121 HOH HOH . E 3 HOH B 53 453 18 HOH HOH . E 3 HOH B 54 454 30 HOH HOH . E 3 HOH B 55 455 263 HOH HOH . E 3 HOH B 56 456 23 HOH HOH . E 3 HOH B 57 457 95 HOH HOH . E 3 HOH B 58 458 175 HOH HOH . E 3 HOH B 59 459 215 HOH HOH . E 3 HOH B 60 460 114 HOH HOH . E 3 HOH B 61 461 279 HOH HOH . E 3 HOH B 62 462 246 HOH HOH . E 3 HOH B 63 463 70 HOH HOH . E 3 HOH B 64 464 125 HOH HOH . E 3 HOH B 65 465 85 HOH HOH . E 3 HOH B 66 466 233 HOH HOH . E 3 HOH B 67 467 208 HOH HOH . E 3 HOH B 68 468 102 HOH HOH . E 3 HOH B 69 469 55 HOH HOH . E 3 HOH B 70 470 98 HOH HOH . E 3 HOH B 71 471 137 HOH HOH . E 3 HOH B 72 472 141 HOH HOH . E 3 HOH B 73 473 219 HOH HOH . E 3 HOH B 74 474 177 HOH HOH . E 3 HOH B 75 475 156 HOH HOH . E 3 HOH B 76 476 61 HOH HOH . E 3 HOH B 77 477 124 HOH HOH . E 3 HOH B 78 478 256 HOH HOH . E 3 HOH B 79 479 268 HOH HOH . E 3 HOH B 80 480 229 HOH HOH . E 3 HOH B 81 481 252 HOH HOH . E 3 HOH B 82 482 134 HOH HOH . E 3 HOH B 83 483 250 HOH HOH . E 3 HOH B 84 484 120 HOH HOH . E 3 HOH B 85 485 230 HOH HOH . E 3 HOH B 86 486 283 HOH HOH . E 3 HOH B 87 487 44 HOH HOH . E 3 HOH B 88 488 212 HOH HOH . E 3 HOH B 89 489 13 HOH HOH . E 3 HOH B 90 490 221 HOH HOH . E 3 HOH B 91 491 277 HOH HOH . E 3 HOH B 92 492 32 HOH HOH . E 3 HOH B 93 493 213 HOH HOH . E 3 HOH B 94 494 202 HOH HOH . E 3 HOH B 95 495 282 HOH HOH . E 3 HOH B 96 496 69 HOH HOH . E 3 HOH B 97 497 186 HOH HOH . E 3 HOH B 98 498 261 HOH HOH . E 3 HOH B 99 499 65 HOH HOH . E 3 HOH B 100 500 88 HOH HOH . E 3 HOH B 101 501 165 HOH HOH . E 3 HOH B 102 502 103 HOH HOH . E 3 HOH B 103 503 204 HOH HOH . E 3 HOH B 104 504 173 HOH HOH . E 3 HOH B 105 505 188 HOH HOH . E 3 HOH B 106 506 67 HOH HOH . E 3 HOH B 107 507 171 HOH HOH . E 3 HOH B 108 508 130 HOH HOH . E 3 HOH B 109 509 211 HOH HOH . E 3 HOH B 110 510 106 HOH HOH . E 3 HOH B 111 511 290 HOH HOH . E 3 HOH B 112 512 247 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 CAA IYV . . . C 2 -28.057 -8.44 32.816 1 59.18 ? CAA IYV 401 A 1 HETATM 2 C CAB IYV . . . C 2 -29.449 -9.039 32.438 1 62.69 ? CAB IYV 401 A 1 HETATM 3 C CAC IYV . . . C 2 -30.635 -8.203 33.026 1 60.66 ? CAC IYV 401 A 1 HETATM 4 C CAD IYV . . . C 2 -30.437 -7.997 34.565 1 63.12 ? CAD IYV 401 A 1 HETATM 5 C CAF IYV . . . C 2 -28.075 -8.287 34.42 1 61.56 ? CAF IYV 401 A 1 HETATM 6 C CAG IYV . . . C 2 -26.715 -8.028 35.17 1 56.17 ? CAG IYV 401 A 1 HETATM 7 C CAH IYV . . . C 2 -26.114 -6.67 34.86 1 58.49 ? CAH IYV 401 A 1 HETATM 8 C CAI IYV . . . C 2 -25.484 -6.072 36.133 1 50.06 ? CAI IYV 401 A 1 HETATM 9 C CAM IYV . . . C 2 -32.254 -9.579 35.937 1 70.99 ? CAM IYV 401 A 1 HETATM 10 N NAO IYV . . . C 2 -26.823 -8.174 36.653 1 48.69 ? NAO IYV 401 A 1 HETATM 11 O OAE IYV . . . C 2 -29.145 -7.342 34.819 1 61.24 ? OAE IYV 401 A 1 HETATM 12 O OAJ IYV . . . C 2 -31.936 -8.845 32.775 1 53.67 ? OAJ IYV 401 A 1 HETATM 13 O OAL IYV . . . C 2 -27.776 -7.2 32.045 1 57.99 ? OAL IYV 401 A 1 HETATM 14 O OAN IYV . . . C 2 -29.573 -9.261 31.006 1 57.2 ? OAN IYV 401 A 1 HETATM 15 O OAP IYV . . . C 2 -25.12 -6.855 33.848 1 59.36 ? OAP IYV 401 A 1 HETATM 16 S SAK IYV . . . C 2 -30.492 -9.437 35.659 1 63.86 ? SAK IYV 401 A 1 # _model_server_stats.io_time_ms 113 _model_server_stats.parse_time_ms 121 _model_server_stats.create_model_time_ms 41 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 48 _model_server_stats.element_count 16 #