data_7X4U # _model_server_result.job_id pKBj7JWqVUMCe5yfutnevA _model_server_result.datetime_utc '2024-11-15 07:49:25' _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 7x4u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 7X4U # _exptl.entry_id 7X4U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 392.15 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL _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 120 _cell.entry_id 7X4U _cell.length_a 91.743 _cell.length_b 91.743 _cell.length_c 100.308 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7X4U _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C11 H13 I N4 O4' _chem_comp.formula_weight 392.15 _chem_comp.id 5ID _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 5-IODOTUBERCIDIN # 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 O5' C5' 5ID sing 1 n n O5' H5' 5ID sing 2 n n C5' C4' 5ID sing 3 n n C5' "H5'1" 5ID sing 4 n n C5' "H5'2" 5ID sing 5 n n C4' O4' 5ID sing 6 n n C4' C3' 5ID sing 7 n n C4' H4' 5ID sing 8 n n O4' C1' 5ID sing 9 n n C1' N9 5ID sing 10 n n C1' C2' 5ID sing 11 n n C1' H1' 5ID sing 12 n n N9 C8 5ID sing 13 n y N9 C4 5ID sing 14 n y C8 C7 5ID doub 15 n y C8 H8 5ID sing 16 n n C7 C5 5ID sing 17 n y C7 IAE 5ID sing 18 n n C5 C6 5ID doub 19 n y C5 C4 5ID sing 20 n y C6 N1 5ID sing 21 n y C6 N6 5ID sing 22 n n N1 C2 5ID doub 23 n y C2 N3 5ID sing 24 n y C2 H2 5ID sing 25 n n N3 C4 5ID doub 26 n y N6 H6N1 5ID sing 27 n n N6 H6N2 5ID sing 28 n n C2' O2' 5ID sing 29 n n C2' C3' 5ID sing 30 n n C2' H2' 5ID sing 31 n n O2' HA 5ID sing 32 n n C3' O3' 5ID sing 33 n n C3' H3' 5ID sing 34 n n O3' HB 5ID sing 35 n n # _atom_sites.entry_id 7X4U _atom_sites.fract_transf_matrix[1][1] 0.0109 _atom_sites.fract_transf_matrix[1][2] 0.006293 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012586 _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] 0.009969 _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 5ID A 1 401 401 5ID 5ID . C 3 8DK A 1 402 501 8DK LIG . D 4 GOL A 1 403 701 GOL GOL . E 5 BTB A 1 404 801 BTB BTB . F 4 GOL A 1 405 901 GOL GOL . G 4 GOL A 1 406 1001 GOL GOL . H 6 SO4 A 1 407 3 SO4 SO4 . I 7 HOH A 1 501 188 HOH HOH . I 7 HOH A 2 502 154 HOH HOH . I 7 HOH A 3 503 176 HOH HOH . I 7 HOH A 4 504 84 HOH HOH . I 7 HOH A 5 505 39 HOH HOH . I 7 HOH A 6 506 60 HOH HOH . I 7 HOH A 7 507 92 HOH HOH . I 7 HOH A 8 508 101 HOH HOH . I 7 HOH A 9 509 149 HOH HOH . I 7 HOH A 10 510 179 HOH HOH . I 7 HOH A 11 511 64 HOH HOH . I 7 HOH A 12 512 192 HOH HOH . I 7 HOH A 13 513 189 HOH HOH . I 7 HOH A 14 514 97 HOH HOH . I 7 HOH A 15 515 23 HOH HOH . I 7 HOH A 16 516 85 HOH HOH . I 7 HOH A 17 517 81 HOH HOH . I 7 HOH A 18 518 156 HOH HOH . I 7 HOH A 19 519 54 HOH HOH . I 7 HOH A 20 520 70 HOH HOH . I 7 HOH A 21 521 55 HOH HOH . I 7 HOH A 22 522 29 HOH HOH . I 7 HOH A 23 523 25 HOH HOH . I 7 HOH A 24 524 6 HOH HOH . I 7 HOH A 25 525 40 HOH HOH . I 7 HOH A 26 526 74 HOH HOH . I 7 HOH A 27 527 21 HOH HOH . I 7 HOH A 28 528 133 HOH HOH . I 7 HOH A 29 529 62 HOH HOH . I 7 HOH A 30 530 138 HOH HOH . I 7 HOH A 31 531 77 HOH HOH . I 7 HOH A 32 532 35 HOH HOH . I 7 HOH A 33 533 117 HOH HOH . I 7 HOH A 34 534 80 HOH HOH . I 7 HOH A 35 535 15 HOH HOH . I 7 HOH A 36 536 32 HOH HOH . I 7 HOH A 37 537 45 HOH HOH . I 7 HOH A 38 538 96 HOH HOH . I 7 HOH A 39 539 66 HOH HOH . I 7 HOH A 40 540 185 HOH HOH . I 7 HOH A 41 541 41 HOH HOH . I 7 HOH A 42 542 59 HOH HOH . I 7 HOH A 43 543 187 HOH HOH . I 7 HOH A 44 544 191 HOH HOH . I 7 HOH A 45 545 72 HOH HOH . I 7 HOH A 46 546 137 HOH HOH . I 7 HOH A 47 547 52 HOH HOH . I 7 HOH A 48 548 143 HOH HOH . I 7 HOH A 49 549 88 HOH HOH . I 7 HOH A 50 550 86 HOH HOH . I 7 HOH A 51 551 18 HOH HOH . I 7 HOH A 52 552 151 HOH HOH . I 7 HOH A 53 553 180 HOH HOH . I 7 HOH A 54 554 167 HOH HOH . I 7 HOH A 55 555 43 HOH HOH . I 7 HOH A 56 556 26 HOH HOH . I 7 HOH A 57 557 67 HOH HOH . I 7 HOH A 58 558 24 HOH HOH . I 7 HOH A 59 559 102 HOH HOH . I 7 HOH A 60 560 13 HOH HOH . I 7 HOH A 61 561 122 HOH HOH . I 7 HOH A 62 562 53 HOH HOH . I 7 HOH A 63 563 71 HOH HOH . I 7 HOH A 64 564 51 HOH HOH . I 7 HOH A 65 565 8 HOH HOH . I 7 HOH A 66 566 16 HOH HOH . I 7 HOH A 67 567 173 HOH HOH . I 7 HOH A 68 568 89 HOH HOH . I 7 HOH A 69 569 153 HOH HOH . I 7 HOH A 70 570 37 HOH HOH . I 7 HOH A 71 571 78 HOH HOH . I 7 HOH A 72 572 193 HOH HOH . I 7 HOH A 73 573 116 HOH HOH . I 7 HOH A 74 574 139 HOH HOH . I 7 HOH A 75 575 136 HOH HOH . I 7 HOH A 76 576 17 HOH HOH . I 7 HOH A 77 577 157 HOH HOH . I 7 HOH A 78 578 105 HOH HOH . I 7 HOH A 79 579 22 HOH HOH . I 7 HOH A 80 580 7 HOH HOH . I 7 HOH A 81 581 140 HOH HOH . I 7 HOH A 82 582 14 HOH HOH . I 7 HOH A 83 583 162 HOH HOH . I 7 HOH A 84 584 11 HOH HOH . I 7 HOH A 85 585 27 HOH HOH . I 7 HOH A 86 586 9 HOH HOH . I 7 HOH A 87 587 158 HOH HOH . I 7 HOH A 88 588 83 HOH HOH . I 7 HOH A 89 589 65 HOH HOH . I 7 HOH A 90 590 3 HOH HOH . I 7 HOH A 91 591 10 HOH HOH . I 7 HOH A 92 592 49 HOH HOH . I 7 HOH A 93 593 57 HOH HOH . I 7 HOH A 94 594 28 HOH HOH . I 7 HOH A 95 595 127 HOH HOH . I 7 HOH A 96 596 73 HOH HOH . I 7 HOH A 97 597 75 HOH HOH . I 7 HOH A 98 598 172 HOH HOH . I 7 HOH A 99 599 68 HOH HOH . I 7 HOH A 100 600 181 HOH HOH . I 7 HOH A 101 601 166 HOH HOH . I 7 HOH A 102 602 194 HOH HOH . I 7 HOH A 103 603 47 HOH HOH . I 7 HOH A 104 604 91 HOH HOH . I 7 HOH A 105 605 160 HOH HOH . I 7 HOH A 106 606 58 HOH HOH . I 7 HOH A 107 607 42 HOH HOH . I 7 HOH A 108 608 63 HOH HOH . I 7 HOH A 109 609 48 HOH HOH . I 7 HOH A 110 610 134 HOH HOH . I 7 HOH A 111 611 61 HOH HOH . I 7 HOH A 112 612 98 HOH HOH . I 7 HOH A 113 613 90 HOH HOH . I 7 HOH A 114 614 126 HOH HOH . I 7 HOH A 115 615 100 HOH HOH . I 7 HOH A 116 616 2 HOH HOH . I 7 HOH A 117 617 30 HOH HOH . I 7 HOH A 118 618 183 HOH HOH . I 7 HOH A 119 619 145 HOH HOH . I 7 HOH A 120 620 20 HOH HOH . I 7 HOH A 121 621 168 HOH HOH . I 7 HOH A 122 622 4 HOH HOH . I 7 HOH A 123 623 99 HOH HOH . I 7 HOH A 124 624 121 HOH HOH . I 7 HOH A 125 625 109 HOH HOH . I 7 HOH A 126 626 46 HOH HOH . I 7 HOH A 127 627 178 HOH HOH . I 7 HOH A 128 628 69 HOH HOH . I 7 HOH A 129 629 103 HOH HOH . I 7 HOH A 130 630 19 HOH HOH . I 7 HOH A 131 631 5 HOH HOH . I 7 HOH A 132 632 190 HOH HOH . I 7 HOH A 133 633 118 HOH HOH . I 7 HOH A 134 634 50 HOH HOH . I 7 HOH A 135 635 159 HOH HOH . I 7 HOH A 136 636 123 HOH HOH . I 7 HOH A 137 637 128 HOH HOH . I 7 HOH A 138 638 152 HOH HOH . I 7 HOH A 139 639 174 HOH HOH . I 7 HOH A 140 640 110 HOH HOH . I 7 HOH A 141 641 175 HOH HOH . I 7 HOH A 142 642 111 HOH HOH . I 7 HOH A 143 643 119 HOH HOH . I 7 HOH A 144 644 94 HOH HOH . I 7 HOH A 145 645 93 HOH HOH . I 7 HOH A 146 646 131 HOH HOH . I 7 HOH A 147 647 164 HOH HOH . I 7 HOH A 148 648 82 HOH HOH . I 7 HOH A 149 649 76 HOH HOH . I 7 HOH A 150 650 195 HOH HOH . I 7 HOH A 151 651 106 HOH HOH . I 7 HOH A 152 652 38 HOH HOH . I 7 HOH A 153 653 120 HOH HOH . I 7 HOH A 154 654 34 HOH HOH . I 7 HOH A 155 655 31 HOH HOH . I 7 HOH A 156 656 171 HOH HOH . I 7 HOH A 157 657 107 HOH HOH . I 7 HOH A 158 658 129 HOH HOH . I 7 HOH A 159 659 104 HOH HOH . I 7 HOH A 160 660 184 HOH HOH . I 7 HOH A 161 661 112 HOH HOH . I 7 HOH A 162 662 146 HOH HOH . I 7 HOH A 163 663 165 HOH HOH . I 7 HOH A 164 664 130 HOH HOH . I 7 HOH A 165 665 114 HOH HOH . I 7 HOH A 166 666 182 HOH HOH . I 7 HOH A 167 667 135 HOH HOH . I 7 HOH A 168 668 148 HOH HOH . I 7 HOH A 169 669 113 HOH HOH . I 7 HOH A 170 670 79 HOH HOH . I 7 HOH A 171 671 177 HOH HOH . I 7 HOH A 172 672 87 HOH HOH . I 7 HOH A 173 673 161 HOH HOH . I 7 HOH A 174 674 12 HOH HOH . I 7 HOH A 175 675 141 HOH HOH . I 7 HOH A 176 676 36 HOH HOH . I 7 HOH A 177 677 170 HOH HOH . I 7 HOH A 178 678 163 HOH HOH . I 7 HOH A 179 679 132 HOH HOH . I 7 HOH A 180 680 33 HOH HOH . I 7 HOH A 181 681 169 HOH HOH . I 7 HOH A 182 682 155 HOH HOH . I 7 HOH A 183 683 115 HOH HOH . I 7 HOH A 184 684 144 HOH HOH . I 7 HOH A 185 685 147 HOH HOH . I 7 HOH A 186 686 186 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 O O5' 5ID . . . B 2 -2.307 -30.672 7.554 1 53.55 ? O5' 5ID 401 A 1 HETATM 2 C C5' 5ID . . . B 2 -2.691 -29.339 7.764 1 67.25 ? C5' 5ID 401 A 1 HETATM 3 C C4' 5ID . . . B 2 -2.199 -28.504 6.544 1 77.23 ? C4' 5ID 401 A 1 HETATM 4 O O4' 5ID . . . B 2 -1.808 -27.328 6.886 1 71.64 ? O4' 5ID 401 A 1 HETATM 5 C C1' 5ID . . . B 2 -0.239 -27.514 7.34 1 67.31 ? C1' 5ID 401 A 1 HETATM 6 N N9 5ID . . . B 2 -0.101 -27.121 8.728 1 58.33 ? N9 5ID 401 A 1 HETATM 7 C C8 5ID . . . B 2 -1.09 -26.79 9.569 1 58.27 ? C8 5ID 401 A 1 HETATM 8 C C7 5ID . . . B 2 -0.527 -26.481 10.814 1 49.9 ? C7 5ID 401 A 1 HETATM 9 C C5 5ID . . . B 2 0.869 -26.636 10.671 1 47.84 ? C5 5ID 401 A 1 HETATM 10 C C6 5ID . . . B 2 1.977 -26.477 11.536 1 46.09 ? C6 5ID 401 A 1 HETATM 11 N N1 5ID . . . B 2 3.194 -26.708 11.063 1 42.05 ? N1 5ID 401 A 1 HETATM 12 C C2 5ID . . . B 2 3.387 -27.093 9.811 1 45.99 ? C2 5ID 401 A 1 HETATM 13 N N3 5ID . . . B 2 2.375 -27.252 8.976 1 51.23 ? N3 5ID 401 A 1 HETATM 14 C C4 5ID . . . B 2 1.102 -27.028 9.373 1 49.18 ? C4 5ID 401 A 1 HETATM 15 N N6 5ID . . . B 2 1.763 -26.055 12.906 1 32.11 ? N6 5ID 401 A 1 HETATM 16 C C2' 5ID . . . B 2 0.077 -28.782 7.124 1 64.37 ? C2' 5ID 401 A 1 HETATM 17 O O2' 5ID . . . B 2 1.519 -28.99 6.748 1 71.13 ? O2' 5ID 401 A 1 HETATM 18 C C3' 5ID . . . B 2 -0.86 -29.082 5.949 1 76.09 ? C3' 5ID 401 A 1 HETATM 19 O O3' 5ID . . . B 2 -0.49 -28.413 4.822 1 68.94 ? O3' 5ID 401 A 1 HETATM 20 I IAE 5ID . . . B 2 -1.572 -25.872 12.567 1 78.72 ? IAE 5ID 401 A 1 HETATM 21 H H5' 5ID . . . B 2 -2.875 -31.061 7.058 1 64.26 ? H5' 5ID 401 A 1 HETATM 22 H "H5'1" 5ID . . . B 2 -2.285 -29.004 8.578 1 80.7 ? "H5'1" 5ID 401 A 1 HETATM 23 H "H5'2" 5ID . . . B 2 -3.657 -29.283 7.833 1 80.7 ? "H5'2" 5ID 401 A 1 HETATM 24 H H4' 5ID . . . B 2 -2.927 -28.485 5.904 1 92.68 ? H4' 5ID 401 A 1 HETATM 25 H H1' 5ID . . . B 2 0.352 -26.978 6.788 1 80.77 ? H1' 5ID 401 A 1 HETATM 26 H H8 5ID . . . B 2 -1.997 -26.769 9.362 1 69.92 ? H8 5ID 401 A 1 HETATM 27 H H2 5ID . . . B 2 4.253 -27.256 9.513 1 55.18 ? H2 5ID 401 A 1 HETATM 28 H H6N1 5ID . . . B 2 2.266 -25.446 13.246 1 38.54 ? H6N1 5ID 401 A 1 HETATM 29 H H6N2 5ID . . . B 2 1.159 -26.431 13.386 1 38.54 ? H6N2 5ID 401 A 1 HETATM 30 H H2' 5ID . . . B 2 -0.075 -29.336 7.905 1 77.24 ? H2' 5ID 401 A 1 HETATM 31 H HA 5ID . . . B 2 1.733 -29.784 6.958 1 85.36 ? HA 5ID 401 A 1 HETATM 32 H H3' 5ID . . . B 2 -0.904 -30.024 5.72 1 91.31 ? H3' 5ID 401 A 1 HETATM 33 H HB 5ID . . . B 2 -0.136 -28.976 4.286 1 82.72 ? HB 5ID 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 261 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #