data_1KI6 # _model_server_result.job_id s1uHMDnmNUmBRz7JFjmUWw _model_server_result.datetime_utc '2024-11-24 14:35:45' _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 1ki6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 1KI6 # _exptl.entry_id 1KI6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 368.125 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(5-IODOURACIL-1-YL)-D-ABABINO-HEXITOL" _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 90 _cell.entry_id 1KI6 _cell.length_a 113.6 _cell.length_b 116.4 _cell.length_c 108.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KI6 _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,E,F,G,H _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 ? 4 D N N ? 4 F N N # _chem_comp.formula 'C10 H13 I N2 O5' _chem_comp.formula_weight 368.125 _chem_comp.id AHU _chem_comp.mon_nstd_flag . _chem_comp.name "1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(5-IODOURACIL-1-YL)-D-ABABINO-HEXITOL" _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 C4' C7' AHU sing 1 n n C4' O5' AHU sing 2 n n C4' C3' AHU sing 3 n n C4' H4' AHU sing 4 n n C7' O7' AHU sing 5 n n C7' "H7'1" AHU sing 6 n n C7' "H7'2" AHU sing 7 n n O7' "HO'7" AHU sing 8 n n O5' C6' AHU sing 9 n n C6' C1' AHU sing 10 n n C6' "H6'1" AHU sing 11 n n C6' "H6'2" AHU sing 12 n n C1' C2' AHU sing 13 n n C1' N1 AHU sing 14 n n C1' H1' AHU sing 15 n n C2' C3' AHU sing 16 n n C2' "H2'1" AHU sing 17 n n C2' "H2'2" AHU sing 18 n n C3' O3' AHU sing 19 n n C3' H3' AHU sing 20 n n O3' "HO'3" AHU sing 21 n n N1 C6 AHU sing 22 n n N1 C2 AHU sing 23 n n C6 C5 AHU doub 24 n n C6 H6 AHU sing 25 n n C2 O2 AHU doub 26 n n C2 N3 AHU sing 27 n n N3 C4 AHU sing 28 n n N3 HN3 AHU sing 29 n n C4 O4 AHU doub 30 n n C4 C5 AHU sing 31 n n C5 I AHU sing 32 n n # _atom_sites.entry_id 1KI6 _atom_sites.fract_transf_matrix[1][1] 0.008803 _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] 0.008591 _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] 0.009225 _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 3 SO4 A 1 3 3 SO4 SO4 . D 4 AHU A 1 1 1 AHU AHU . E 3 SO4 B 1 4 4 SO4 SO4 . F 4 AHU B 1 2 2 AHU AHU . G 5 HOH A 1 501 501 HOH HOH . G 5 HOH A 2 503 503 HOH HOH . G 5 HOH A 3 505 505 HOH HOH . G 5 HOH A 4 507 507 HOH HOH . G 5 HOH A 5 509 509 HOH HOH . G 5 HOH A 6 511 511 HOH HOH . G 5 HOH A 7 513 513 HOH HOH . G 5 HOH A 8 516 516 HOH HOH . G 5 HOH A 9 521 521 HOH HOH . G 5 HOH A 10 522 522 HOH HOH . G 5 HOH A 11 523 523 HOH HOH . G 5 HOH A 12 524 524 HOH HOH . G 5 HOH A 13 526 526 HOH HOH . G 5 HOH A 14 528 528 HOH HOH . G 5 HOH A 15 530 530 HOH HOH . G 5 HOH A 16 532 532 HOH HOH . G 5 HOH A 17 534 534 HOH HOH . G 5 HOH A 18 536 536 HOH HOH . G 5 HOH A 19 539 539 HOH HOH . G 5 HOH A 20 542 542 HOH HOH . G 5 HOH A 21 544 544 HOH HOH . G 5 HOH A 22 545 545 HOH HOH . G 5 HOH A 23 547 547 HOH HOH . G 5 HOH A 24 549 549 HOH HOH . G 5 HOH A 25 551 551 HOH HOH . G 5 HOH A 26 553 553 HOH HOH . G 5 HOH A 27 555 555 HOH HOH . G 5 HOH A 28 557 557 HOH HOH . G 5 HOH A 29 558 558 HOH HOH . G 5 HOH A 30 561 561 HOH HOH . G 5 HOH A 31 562 562 HOH HOH . G 5 HOH A 32 564 564 HOH HOH . G 5 HOH A 33 566 566 HOH HOH . G 5 HOH A 34 567 567 HOH HOH . G 5 HOH A 35 570 570 HOH HOH . G 5 HOH A 36 572 572 HOH HOH . G 5 HOH A 37 575 575 HOH HOH . G 5 HOH A 38 578 578 HOH HOH . G 5 HOH A 39 579 579 HOH HOH . G 5 HOH A 40 581 581 HOH HOH . G 5 HOH A 41 583 583 HOH HOH . G 5 HOH A 42 586 586 HOH HOH . G 5 HOH A 43 587 587 HOH HOH . G 5 HOH A 44 590 590 HOH HOH . G 5 HOH A 45 591 591 HOH HOH . G 5 HOH A 46 594 594 HOH HOH . G 5 HOH A 47 596 596 HOH HOH . G 5 HOH A 48 598 598 HOH HOH . G 5 HOH A 49 599 599 HOH HOH . G 5 HOH A 50 600 600 HOH HOH . G 5 HOH A 51 603 603 HOH HOH . G 5 HOH A 52 604 604 HOH HOH . G 5 HOH A 53 605 605 HOH HOH . G 5 HOH A 54 607 607 HOH HOH . G 5 HOH A 55 610 610 HOH HOH . G 5 HOH A 56 611 611 HOH HOH . G 5 HOH A 57 612 612 HOH HOH . G 5 HOH A 58 615 615 HOH HOH . G 5 HOH A 59 616 616 HOH HOH . G 5 HOH A 60 619 619 HOH HOH . G 5 HOH A 61 620 620 HOH HOH . G 5 HOH A 62 621 621 HOH HOH . G 5 HOH A 63 622 622 HOH HOH . G 5 HOH A 64 628 628 HOH HOH . G 5 HOH A 65 629 629 HOH HOH . G 5 HOH A 66 630 630 HOH HOH . G 5 HOH A 67 631 631 HOH HOH . G 5 HOH A 68 636 636 HOH HOH . G 5 HOH A 69 638 638 HOH HOH . G 5 HOH A 70 641 641 HOH HOH . G 5 HOH A 71 644 644 HOH HOH . G 5 HOH A 72 645 645 HOH HOH . G 5 HOH A 73 646 646 HOH HOH . G 5 HOH A 74 647 647 HOH HOH . G 5 HOH A 75 648 648 HOH HOH . G 5 HOH A 76 649 649 HOH HOH . G 5 HOH A 77 652 652 HOH HOH . G 5 HOH A 78 653 653 HOH HOH . G 5 HOH A 79 657 657 HOH HOH . G 5 HOH A 80 659 659 HOH HOH . G 5 HOH A 81 663 663 HOH HOH . G 5 HOH A 82 664 664 HOH HOH . G 5 HOH A 83 665 665 HOH HOH . G 5 HOH A 84 666 666 HOH HOH . G 5 HOH A 85 667 667 HOH HOH . G 5 HOH A 86 668 668 HOH HOH . G 5 HOH A 87 669 669 HOH HOH . G 5 HOH A 88 674 674 HOH HOH . G 5 HOH A 89 677 677 HOH HOH . G 5 HOH A 90 678 678 HOH HOH . G 5 HOH A 91 682 682 HOH HOH . G 5 HOH A 92 685 685 HOH HOH . G 5 HOH A 93 686 686 HOH HOH . G 5 HOH A 94 688 688 HOH HOH . G 5 HOH A 95 690 690 HOH HOH . G 5 HOH A 96 694 694 HOH HOH . G 5 HOH A 97 695 695 HOH HOH . G 5 HOH A 98 698 698 HOH HOH . G 5 HOH A 99 699 699 HOH HOH . G 5 HOH A 100 702 702 HOH HOH . G 5 HOH A 101 703 703 HOH HOH . G 5 HOH A 102 706 706 HOH HOH . G 5 HOH A 103 707 707 HOH HOH . G 5 HOH A 104 708 708 HOH HOH . G 5 HOH A 105 710 710 HOH HOH . G 5 HOH A 106 711 711 HOH HOH . G 5 HOH A 107 713 713 HOH HOH . G 5 HOH A 108 718 718 HOH HOH . G 5 HOH A 109 724 724 HOH HOH . G 5 HOH A 110 725 725 HOH HOH . G 5 HOH A 111 726 726 HOH HOH . G 5 HOH A 112 728 728 HOH HOH . G 5 HOH A 113 729 729 HOH HOH . G 5 HOH A 114 732 732 HOH HOH . G 5 HOH A 115 733 733 HOH HOH . G 5 HOH A 116 736 736 HOH HOH . G 5 HOH A 117 739 739 HOH HOH . G 5 HOH A 118 741 741 HOH HOH . G 5 HOH A 119 742 742 HOH HOH . G 5 HOH A 120 743 743 HOH HOH . G 5 HOH A 121 744 744 HOH HOH . G 5 HOH A 122 745 745 HOH HOH . G 5 HOH A 123 747 747 HOH HOH . G 5 HOH A 124 748 748 HOH HOH . G 5 HOH A 125 751 751 HOH HOH . G 5 HOH A 126 752 752 HOH HOH . G 5 HOH A 127 753 753 HOH HOH . G 5 HOH A 128 754 754 HOH HOH . G 5 HOH A 129 756 756 HOH HOH . G 5 HOH A 130 761 761 HOH HOH . G 5 HOH A 131 762 762 HOH HOH . G 5 HOH A 132 769 769 HOH HOH . G 5 HOH A 133 771 771 HOH HOH . G 5 HOH A 134 772 772 HOH HOH . G 5 HOH A 135 775 775 HOH HOH . H 5 HOH B 1 502 502 HOH HOH . H 5 HOH B 2 504 504 HOH HOH . H 5 HOH B 3 506 506 HOH HOH . H 5 HOH B 4 508 508 HOH HOH . H 5 HOH B 5 510 510 HOH HOH . H 5 HOH B 6 512 512 HOH HOH . H 5 HOH B 7 514 514 HOH HOH . H 5 HOH B 8 515 515 HOH HOH . H 5 HOH B 9 517 517 HOH HOH . H 5 HOH B 10 518 518 HOH HOH . H 5 HOH B 11 519 519 HOH HOH . H 5 HOH B 12 520 520 HOH HOH . H 5 HOH B 13 525 525 HOH HOH . H 5 HOH B 14 527 527 HOH HOH . H 5 HOH B 15 529 529 HOH HOH . H 5 HOH B 16 531 531 HOH HOH . H 5 HOH B 17 533 533 HOH HOH . H 5 HOH B 18 535 535 HOH HOH . H 5 HOH B 19 537 537 HOH HOH . H 5 HOH B 20 538 538 HOH HOH . H 5 HOH B 21 540 540 HOH HOH . H 5 HOH B 22 541 541 HOH HOH . H 5 HOH B 23 543 543 HOH HOH . H 5 HOH B 24 546 546 HOH HOH . H 5 HOH B 25 548 548 HOH HOH . H 5 HOH B 26 550 550 HOH HOH . H 5 HOH B 27 552 552 HOH HOH . H 5 HOH B 28 554 554 HOH HOH . H 5 HOH B 29 556 556 HOH HOH . H 5 HOH B 30 559 559 HOH HOH . H 5 HOH B 31 560 560 HOH HOH . H 5 HOH B 32 563 563 HOH HOH . H 5 HOH B 33 565 565 HOH HOH . H 5 HOH B 34 568 568 HOH HOH . H 5 HOH B 35 569 569 HOH HOH . H 5 HOH B 36 571 571 HOH HOH . H 5 HOH B 37 573 573 HOH HOH . H 5 HOH B 38 574 574 HOH HOH . H 5 HOH B 39 576 576 HOH HOH . H 5 HOH B 40 577 577 HOH HOH . H 5 HOH B 41 580 580 HOH HOH . H 5 HOH B 42 582 582 HOH HOH . H 5 HOH B 43 584 584 HOH HOH . H 5 HOH B 44 585 585 HOH HOH . H 5 HOH B 45 588 588 HOH HOH . H 5 HOH B 46 589 589 HOH HOH . H 5 HOH B 47 592 592 HOH HOH . H 5 HOH B 48 593 593 HOH HOH . H 5 HOH B 49 595 595 HOH HOH . H 5 HOH B 50 597 597 HOH HOH . H 5 HOH B 51 601 601 HOH HOH . H 5 HOH B 52 602 602 HOH HOH . H 5 HOH B 53 606 606 HOH HOH . H 5 HOH B 54 608 608 HOH HOH . H 5 HOH B 55 609 609 HOH HOH . H 5 HOH B 56 613 613 HOH HOH . H 5 HOH B 57 614 614 HOH HOH . H 5 HOH B 58 617 617 HOH HOH . H 5 HOH B 59 618 618 HOH HOH . H 5 HOH B 60 623 623 HOH HOH . H 5 HOH B 61 624 624 HOH HOH . H 5 HOH B 62 625 625 HOH HOH . H 5 HOH B 63 626 626 HOH HOH . H 5 HOH B 64 627 627 HOH HOH . H 5 HOH B 65 632 632 HOH HOH . H 5 HOH B 66 633 633 HOH HOH . H 5 HOH B 67 634 634 HOH HOH . H 5 HOH B 68 635 635 HOH HOH . H 5 HOH B 69 637 637 HOH HOH . H 5 HOH B 70 639 639 HOH HOH . H 5 HOH B 71 640 640 HOH HOH . H 5 HOH B 72 642 642 HOH HOH . H 5 HOH B 73 643 643 HOH HOH . H 5 HOH B 74 650 650 HOH HOH . H 5 HOH B 75 651 651 HOH HOH . H 5 HOH B 76 654 654 HOH HOH . H 5 HOH B 77 655 655 HOH HOH . H 5 HOH B 78 656 656 HOH HOH . H 5 HOH B 79 658 658 HOH HOH . H 5 HOH B 80 660 660 HOH HOH . H 5 HOH B 81 661 661 HOH HOH . H 5 HOH B 82 662 662 HOH HOH . H 5 HOH B 83 670 670 HOH HOH . H 5 HOH B 84 671 671 HOH HOH . H 5 HOH B 85 672 672 HOH HOH . H 5 HOH B 86 673 673 HOH HOH . H 5 HOH B 87 675 675 HOH HOH . H 5 HOH B 88 676 676 HOH HOH . H 5 HOH B 89 679 679 HOH HOH . H 5 HOH B 90 680 680 HOH HOH . H 5 HOH B 91 681 681 HOH HOH . H 5 HOH B 92 683 683 HOH HOH . H 5 HOH B 93 684 684 HOH HOH . H 5 HOH B 94 687 687 HOH HOH . H 5 HOH B 95 689 689 HOH HOH . H 5 HOH B 96 691 691 HOH HOH . H 5 HOH B 97 692 692 HOH HOH . H 5 HOH B 98 693 693 HOH HOH . H 5 HOH B 99 696 696 HOH HOH . H 5 HOH B 100 697 697 HOH HOH . H 5 HOH B 101 700 700 HOH HOH . H 5 HOH B 102 701 701 HOH HOH . H 5 HOH B 103 704 704 HOH HOH . H 5 HOH B 104 705 705 HOH HOH . H 5 HOH B 105 709 709 HOH HOH . H 5 HOH B 106 712 712 HOH HOH . H 5 HOH B 107 714 714 HOH HOH . H 5 HOH B 108 715 715 HOH HOH . H 5 HOH B 109 716 716 HOH HOH . H 5 HOH B 110 717 717 HOH HOH . H 5 HOH B 111 719 719 HOH HOH . H 5 HOH B 112 720 720 HOH HOH . H 5 HOH B 113 721 721 HOH HOH . H 5 HOH B 114 722 722 HOH HOH . H 5 HOH B 115 723 723 HOH HOH . H 5 HOH B 116 727 727 HOH HOH . H 5 HOH B 117 730 730 HOH HOH . H 5 HOH B 118 731 731 HOH HOH . H 5 HOH B 119 734 734 HOH HOH . H 5 HOH B 120 735 735 HOH HOH . H 5 HOH B 121 737 737 HOH HOH . H 5 HOH B 122 738 738 HOH HOH . H 5 HOH B 123 740 740 HOH HOH . H 5 HOH B 124 746 746 HOH HOH . H 5 HOH B 125 749 749 HOH HOH . H 5 HOH B 126 750 750 HOH HOH . H 5 HOH B 127 755 755 HOH HOH . H 5 HOH B 128 757 757 HOH HOH . H 5 HOH B 129 758 758 HOH HOH . H 5 HOH B 130 759 759 HOH HOH . H 5 HOH B 131 760 760 HOH HOH . H 5 HOH B 132 763 763 HOH HOH . H 5 HOH B 133 764 764 HOH HOH . H 5 HOH B 134 765 765 HOH HOH . H 5 HOH B 135 766 766 HOH HOH . H 5 HOH B 136 767 767 HOH HOH . H 5 HOH B 137 768 768 HOH HOH . H 5 HOH B 138 770 770 HOH HOH . H 5 HOH B 139 773 773 HOH HOH . H 5 HOH B 140 774 774 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 C4' AHU . . . D 4 50.574 83.725 54.555 1 13.41 ? C4' AHU 1 A 1 HETATM 2 C C7' AHU . . . D 4 50.512 82.832 53.403 1 12.56 ? C7' AHU 1 A 1 HETATM 3 O O7' AHU . . . D 4 50.694 81.569 54.009 1 13.95 ? O7' AHU 1 A 1 HETATM 4 O O5' AHU . . . D 4 49.883 84.977 54.305 1 15.15 ? O5' AHU 1 A 1 HETATM 5 C C6' AHU . . . D 4 48.566 84.768 53.827 1 14.85 ? C6' AHU 1 A 1 HETATM 6 C C1' AHU . . . D 4 47.661 84.119 54.876 1 14.08 ? C1' AHU 1 A 1 HETATM 7 C C2' AHU . . . D 4 48.358 82.884 55.434 1 14.2 ? C2' AHU 1 A 1 HETATM 8 C C3' AHU . . . D 4 49.827 83.075 55.687 1 14.05 ? C3' AHU 1 A 1 HETATM 9 O O3' AHU . . . D 4 50.173 83.842 56.749 1 16.03 ? O3' AHU 1 A 1 HETATM 10 N N1 AHU . . . D 4 46.4 83.835 54.2 1 13.37 ? N1 AHU 1 A 1 HETATM 11 C C6 AHU . . . D 4 46.287 82.854 53.221 1 14.01 ? C6 AHU 1 A 1 HETATM 12 C C2 AHU . . . D 4 45.336 84.599 54.642 1 14.59 ? C2 AHU 1 A 1 HETATM 13 O O2 AHU . . . D 4 45.384 85.455 55.525 1 10.11 ? O2 AHU 1 A 1 HETATM 14 N N3 AHU . . . D 4 44.197 84.258 53.991 1 18.27 ? N3 AHU 1 A 1 HETATM 15 C C4 AHU . . . D 4 44.029 83.297 52.984 1 17.08 ? C4 AHU 1 A 1 HETATM 16 O O4 AHU . . . D 4 42.892 83.218 52.542 1 18.65 ? O4 AHU 1 A 1 HETATM 17 C C5 AHU . . . D 4 45.205 82.564 52.587 1 15.04 ? C5 AHU 1 A 1 HETATM 18 I I AHU . . . D 4 45.293 81.141 51.1 1 24.21 ? I AHU 1 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 219 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 18 #