data_4WKC # _model_server_result.job_id 95fTb4yulHtHrcwV1AW_IQ _model_server_result.datetime_utc '2024-10-14 08:27:35' _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 4wkc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 4WKC # _exptl.entry_id 4WKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 335.468 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (3R,4S)-1-[(4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]-4-[(butylsulfanyl)methyl]pyrrolidin-3-ol _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 4WKC _cell.length_a 71.396 _cell.length_b 91.386 _cell.length_c 70.64 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WKC _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 3_454 -x-1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 -71.396 0 -35.32 # _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 # _chem_comp.formula 'C16 H25 N5 O S' _chem_comp.formula_weight 335.468 _chem_comp.id BIG _chem_comp.mon_nstd_flag . _chem_comp.name (3R,4S)-1-[(4-amino-5H-pyrrolo[3,2-d]pyrimidin-7-yl)methyl]-4-[(butylsulfanyl)methyl]pyrrolidin-3-ol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'butylthio-DADMe-Immucillin A' # 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 C2 N3 BIG doub 70 n y C2 N1 BIG sing 71 n y C5 C4 BIG doub 72 n y C5 N7 BIG sing 73 n y C5 C6 BIG sing 74 n y C4 N3 BIG sing 75 n y C4 C9 BIG sing 76 n y C8 N7 BIG sing 77 n y C8 C9 BIG doub 78 n y O3' C3' BIG sing 79 n n C3' C4' BIG sing 80 n n C3' C2' BIG sing 81 n n C4' C5' BIG sing 82 n n C4' C1' BIG sing 83 n n C5' S5' BIG sing 84 n n S5' C20 BIG sing 85 n n C20 C21 BIG sing 86 n n C21 C22 BIG sing 87 n n C22 C23 BIG sing 88 n n C1' N1' BIG sing 89 n n N1' C2' BIG sing 90 n n N1' C10 BIG sing 91 n n C10 C9 BIG sing 92 n n C6 N6 BIG sing 93 n n C6 N1 BIG doub 94 n y C2 H2 BIG sing 95 n n C8 H8 BIG sing 96 n n O3' HO3' BIG sing 97 n n C3' H3' BIG sing 98 n n C4' H4' BIG sing 99 n n C5' H5' BIG sing 100 n n C5' "H5'A" BIG sing 101 n n C20 H20 BIG sing 102 n n C20 H20A BIG sing 103 n n C21 H21 BIG sing 104 n n C21 H21A BIG sing 105 n n C22 H22 BIG sing 106 n n C22 H22A BIG sing 107 n n C23 H23 BIG sing 108 n n C23 H23A BIG sing 109 n n C23 H23B BIG sing 110 n n C1' H1' BIG sing 111 n n C1' "H1'A" BIG sing 112 n n C2' H2' BIG sing 113 n n C2' "H2'A" BIG sing 114 n n C10 H10 BIG sing 115 n n C10 H10A BIG sing 116 n n N7 HN7 BIG sing 117 n n N6 HN6 BIG sing 118 n n N6 HN6A BIG sing 119 n n # _atom_sites.entry_id 4WKC _atom_sites.fract_transf_matrix[1][1] 0.014006 _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] 0.010943 _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] 0.014156 _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 BIG A 1 301 1 BIG BIG . C 3 PG4 A 1 302 1 PG4 PG4 . D 4 HOH A 1 401 122 HOH HOH . D 4 HOH A 2 402 62 HOH HOH . D 4 HOH A 3 403 161 HOH HOH . D 4 HOH A 4 404 39 HOH HOH . D 4 HOH A 5 405 78 HOH HOH . D 4 HOH A 6 406 84 HOH HOH . D 4 HOH A 7 407 158 HOH HOH . D 4 HOH A 8 408 6 HOH HOH . D 4 HOH A 9 409 69 HOH HOH . D 4 HOH A 10 410 37 HOH HOH . D 4 HOH A 11 411 76 HOH HOH . D 4 HOH A 12 412 145 HOH HOH . D 4 HOH A 13 413 102 HOH HOH . D 4 HOH A 14 414 56 HOH HOH . D 4 HOH A 15 415 18 HOH HOH . D 4 HOH A 16 416 64 HOH HOH . D 4 HOH A 17 417 40 HOH HOH . D 4 HOH A 18 418 88 HOH HOH . D 4 HOH A 19 419 168 HOH HOH . D 4 HOH A 20 420 68 HOH HOH . D 4 HOH A 21 421 30 HOH HOH . D 4 HOH A 22 422 101 HOH HOH . D 4 HOH A 23 423 130 HOH HOH . D 4 HOH A 24 424 10 HOH HOH . D 4 HOH A 25 425 59 HOH HOH . D 4 HOH A 26 426 32 HOH HOH . D 4 HOH A 27 427 5 HOH HOH . D 4 HOH A 28 428 111 HOH HOH . D 4 HOH A 29 429 167 HOH HOH . D 4 HOH A 30 430 80 HOH HOH . D 4 HOH A 31 431 21 HOH HOH . D 4 HOH A 32 432 74 HOH HOH . D 4 HOH A 33 433 46 HOH HOH . D 4 HOH A 34 434 98 HOH HOH . D 4 HOH A 35 435 52 HOH HOH . D 4 HOH A 36 436 60 HOH HOH . D 4 HOH A 37 437 25 HOH HOH . D 4 HOH A 38 438 55 HOH HOH . D 4 HOH A 39 439 89 HOH HOH . D 4 HOH A 40 440 163 HOH HOH . D 4 HOH A 41 441 17 HOH HOH . D 4 HOH A 42 442 157 HOH HOH . D 4 HOH A 43 443 112 HOH HOH . D 4 HOH A 44 444 86 HOH HOH . D 4 HOH A 45 445 119 HOH HOH . D 4 HOH A 46 446 33 HOH HOH . D 4 HOH A 47 447 27 HOH HOH . D 4 HOH A 48 448 83 HOH HOH . D 4 HOH A 49 449 71 HOH HOH . D 4 HOH A 50 450 48 HOH HOH . D 4 HOH A 51 451 149 HOH HOH . D 4 HOH A 52 452 77 HOH HOH . D 4 HOH A 53 453 154 HOH HOH . D 4 HOH A 54 454 79 HOH HOH . D 4 HOH A 55 455 85 HOH HOH . D 4 HOH A 56 456 118 HOH HOH . D 4 HOH A 57 457 73 HOH HOH . D 4 HOH A 58 458 131 HOH HOH . D 4 HOH A 59 459 113 HOH HOH . D 4 HOH A 60 460 57 HOH HOH . D 4 HOH A 61 461 43 HOH HOH . D 4 HOH A 62 462 135 HOH HOH . D 4 HOH A 63 463 159 HOH HOH . D 4 HOH A 64 464 96 HOH HOH . D 4 HOH A 65 465 169 HOH HOH . D 4 HOH A 66 466 1 HOH HOH . D 4 HOH A 67 467 2 HOH HOH . D 4 HOH A 68 468 3 HOH HOH . D 4 HOH A 69 469 4 HOH HOH . D 4 HOH A 70 470 7 HOH HOH . D 4 HOH A 71 471 8 HOH HOH . D 4 HOH A 72 472 9 HOH HOH . D 4 HOH A 73 473 11 HOH HOH . D 4 HOH A 74 474 12 HOH HOH . D 4 HOH A 75 475 13 HOH HOH . D 4 HOH A 76 476 14 HOH HOH . D 4 HOH A 77 477 15 HOH HOH . D 4 HOH A 78 478 16 HOH HOH . D 4 HOH A 79 479 19 HOH HOH . D 4 HOH A 80 480 20 HOH HOH . D 4 HOH A 81 481 22 HOH HOH . D 4 HOH A 82 482 23 HOH HOH . D 4 HOH A 83 483 24 HOH HOH . D 4 HOH A 84 484 26 HOH HOH . D 4 HOH A 85 485 28 HOH HOH . D 4 HOH A 86 486 29 HOH HOH . D 4 HOH A 87 487 31 HOH HOH . D 4 HOH A 88 488 34 HOH HOH . D 4 HOH A 89 489 35 HOH HOH . D 4 HOH A 90 490 36 HOH HOH . D 4 HOH A 91 491 38 HOH HOH . D 4 HOH A 92 492 41 HOH HOH . D 4 HOH A 93 493 42 HOH HOH . D 4 HOH A 94 494 44 HOH HOH . D 4 HOH A 95 495 45 HOH HOH . D 4 HOH A 96 496 47 HOH HOH . D 4 HOH A 97 497 49 HOH HOH . D 4 HOH A 98 498 50 HOH HOH . D 4 HOH A 99 499 51 HOH HOH . D 4 HOH A 100 500 53 HOH HOH . D 4 HOH A 101 501 54 HOH HOH . D 4 HOH A 102 502 58 HOH HOH . D 4 HOH A 103 503 61 HOH HOH . D 4 HOH A 104 504 63 HOH HOH . D 4 HOH A 105 505 66 HOH HOH . D 4 HOH A 106 506 67 HOH HOH . D 4 HOH A 107 507 70 HOH HOH . D 4 HOH A 108 508 72 HOH HOH . D 4 HOH A 109 509 75 HOH HOH . D 4 HOH A 110 510 81 HOH HOH . D 4 HOH A 111 511 82 HOH HOH . D 4 HOH A 112 512 87 HOH HOH . D 4 HOH A 113 513 90 HOH HOH . D 4 HOH A 114 514 91 HOH HOH . D 4 HOH A 115 515 92 HOH HOH . D 4 HOH A 116 516 93 HOH HOH . D 4 HOH A 117 517 94 HOH HOH . D 4 HOH A 118 518 95 HOH HOH . D 4 HOH A 119 519 97 HOH HOH . D 4 HOH A 120 520 99 HOH HOH . D 4 HOH A 121 521 100 HOH HOH . D 4 HOH A 122 522 103 HOH HOH . D 4 HOH A 123 523 104 HOH HOH . D 4 HOH A 124 524 105 HOH HOH . D 4 HOH A 125 525 106 HOH HOH . D 4 HOH A 126 526 107 HOH HOH . D 4 HOH A 127 527 108 HOH HOH . D 4 HOH A 128 528 109 HOH HOH . D 4 HOH A 129 529 110 HOH HOH . D 4 HOH A 130 530 114 HOH HOH . D 4 HOH A 131 531 115 HOH HOH . D 4 HOH A 132 532 116 HOH HOH . D 4 HOH A 133 533 117 HOH HOH . D 4 HOH A 134 534 120 HOH HOH . D 4 HOH A 135 535 121 HOH HOH . D 4 HOH A 136 536 123 HOH HOH . D 4 HOH A 137 537 124 HOH HOH . D 4 HOH A 138 538 125 HOH HOH . D 4 HOH A 139 539 126 HOH HOH . D 4 HOH A 140 540 127 HOH HOH . D 4 HOH A 141 541 128 HOH HOH . D 4 HOH A 142 542 129 HOH HOH . D 4 HOH A 143 543 132 HOH HOH . D 4 HOH A 144 544 133 HOH HOH . D 4 HOH A 145 545 134 HOH HOH . D 4 HOH A 146 546 136 HOH HOH . D 4 HOH A 147 547 137 HOH HOH . D 4 HOH A 148 548 138 HOH HOH . D 4 HOH A 149 549 139 HOH HOH . D 4 HOH A 150 550 140 HOH HOH . D 4 HOH A 151 551 141 HOH HOH . D 4 HOH A 152 552 142 HOH HOH . D 4 HOH A 153 553 143 HOH HOH . D 4 HOH A 154 554 144 HOH HOH . D 4 HOH A 155 555 146 HOH HOH . D 4 HOH A 156 556 147 HOH HOH . D 4 HOH A 157 557 148 HOH HOH . D 4 HOH A 158 558 150 HOH HOH . D 4 HOH A 159 559 151 HOH HOH . D 4 HOH A 160 560 152 HOH HOH . D 4 HOH A 161 561 153 HOH HOH . D 4 HOH A 162 562 155 HOH HOH . D 4 HOH A 163 563 156 HOH HOH . D 4 HOH A 164 564 160 HOH HOH . D 4 HOH A 165 565 162 HOH HOH . D 4 HOH A 166 566 164 HOH HOH . D 4 HOH A 167 567 165 HOH HOH . D 4 HOH A 168 568 166 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 C2 BIG . . . B 2 -24.884 2.673 -21.862 1 11.12 ? C2 BIG 301 A 1 HETATM 2 C C5 BIG . . . B 2 -22.319 2.72 -22.871 1 11.11 ? C5 BIG 301 A 1 HETATM 3 C C4 BIG . . . B 2 -23.008 1.496 -22.517 1 10.93 ? C4 BIG 301 A 1 HETATM 4 C C8 BIG . . . B 2 -20.967 1.031 -23.34 1 10.31 ? C8 BIG 301 A 1 HETATM 5 O O3' BIG . . . B 2 -25.096 -3.627 -24.657 1 12.6 ? O3' BIG 301 A 1 HETATM 6 C C3' BIG . . . B 2 -25.154 -2.181 -24.612 1 12.02 ? C3' BIG 301 A 1 HETATM 7 C C4' BIG . . . B 2 -24.266 -1.553 -25.669 1 12.6 ? C4' BIG 301 A 1 HETATM 8 C C5' BIG . . . B 2 -24.63 -0.105 -26.01 1 13.72 ? C5' BIG 301 A 1 HETATM 9 S S5' BIG . . . B 2 -26.176 0.096 -26.872 1 16.88 ? S5' BIG 301 A 1 HETATM 10 C C20 BIG . . . B 2 -25.644 0.542 -28.487 1 20.01 ? C20 BIG 301 A 1 HETATM 11 C C21 BIG . . . B 2 -25.032 -0.631 -29.201 1 21.71 ? C21 BIG 301 A 1 HETATM 12 C C22 BIG . . . B 2 -24.863 -0.29 -30.675 1 22.52 ? C22 BIG 301 A 1 HETATM 13 C C23 BIG . . . B 2 -26.185 -0.29 -31.408 1 22.14 ? C23 BIG 301 A 1 HETATM 14 C C1' BIG . . . B 2 -22.873 -1.595 -25.016 1 12.06 ? C1' BIG 301 A 1 HETATM 15 N N1' BIG . . . B 2 -23.124 -1.844 -23.566 1 11.69 ? N1' BIG 301 A 1 HETATM 16 C C2' BIG . . . B 2 -24.572 -1.665 -23.317 1 11.77 ? C2' BIG 301 A 1 HETATM 17 C C10 BIG . . . B 2 -22.274 -1.064 -22.64 1 11.05 ? C10 BIG 301 A 1 HETATM 18 N N7 BIG . . . B 2 -21.098 2.391 -23.343 1 10.76 ? N7 BIG 301 A 1 HETATM 19 C C6 BIG . . . B 2 -23.062 3.947 -22.662 1 11.44 ? C6 BIG 301 A 1 HETATM 20 N N6 BIG . . . B 2 -22.502 5.134 -22.953 1 11.85 ? N6 BIG 301 A 1 HETATM 21 N N3 BIG . . . B 2 -24.281 1.476 -22.019 1 11.32 ? N3 BIG 301 A 1 HETATM 22 C C9 BIG . . . B 2 -22.099 0.409 -22.844 1 10.74 ? C9 BIG 301 A 1 HETATM 23 N N1 BIG . . . B 2 -24.329 3.864 -22.173 1 11.18 ? N1 BIG 301 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 23 #