data_4OXI # _model_server_result.job_id VuagjPhKR9IX7x7ihYqoRg _model_server_result.datetime_utc '2024-11-15 16:50:09' _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 4oxi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 4OXI # _exptl.entry_id 4OXI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 404.273 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GLYCYL-ADENOSINE-5'-PHOSPHATE" _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 4OXI _cell.length_a 116.039 _cell.length_b 116.039 _cell.length_c 99.584 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4OXI _symmetry.cell_setting . _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 'C12 H17 N6 O8 P' _chem_comp.formula_weight 404.273 _chem_comp.id GAP _chem_comp.mon_nstd_flag . _chem_comp.name "GLYCYL-ADENOSINE-5'-PHOSPHATE" _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 GAP sing 83 n n N H1 GAP sing 84 n n N H2A GAP sing 85 n n N H3 GAP sing 86 n n CA C GAP sing 87 n n CA HA1 GAP sing 88 n n CA HA2 GAP sing 89 n n C O GAP doub 90 n n C O3A GAP sing 91 n n PA O1A GAP doub 92 n n PA O2A GAP sing 93 n n PA O3A GAP sing 94 n n PA O5' GAP sing 95 n n C5' O5' GAP sing 96 n n C5' C4' GAP sing 97 n n C5' "H5'1" GAP sing 98 n n C5' "H5'2" GAP sing 99 n n C4' O4' GAP sing 100 n n C4' C3' GAP sing 101 n n C4' H4' GAP sing 102 n n O4' C1' GAP sing 103 n n C3' O3' GAP sing 104 n n C3' C2' GAP sing 105 n n C3' H3' GAP sing 106 n n O3' "HO'3" GAP sing 107 n n C2' O2' GAP sing 108 n n C2' C1' GAP sing 109 n n C2' H2' GAP sing 110 n n O2' "HO'2" GAP sing 111 n n C1' N9 GAP sing 112 n n C1' H1' GAP sing 113 n n N9 C8 GAP sing 114 n y N9 C4 GAP sing 115 n y C8 N7 GAP doub 116 n y C8 H8 GAP sing 117 n n N7 C5 GAP sing 118 n y C5 C6 GAP sing 119 n y C5 C4 GAP doub 120 n y C6 N6 GAP sing 121 n n C6 N1 GAP doub 122 n y N6 H61 GAP sing 123 n n N6 H62 GAP sing 124 n n N1 C2 GAP sing 125 n y C2 N3 GAP doub 126 n y C2 H2 GAP sing 127 n n N3 C4 GAP sing 128 n y # _atom_sites.entry_id 4OXI _atom_sites.fract_transf_matrix[1][1] 0.008618 _atom_sites.fract_transf_matrix[1][2] 0.004975 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009951 _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] 0.010042 _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 GAP A 1 601 551 GAP GAP . C 3 HOH A 1 701 852 HOH HOH . C 3 HOH A 2 702 677 HOH HOH . C 3 HOH A 3 703 582 HOH HOH . C 3 HOH A 4 704 586 HOH HOH . C 3 HOH A 5 705 581 HOH HOH . C 3 HOH A 6 706 625 HOH HOH . C 3 HOH A 7 707 629 HOH HOH . C 3 HOH A 8 708 678 HOH HOH . C 3 HOH A 9 709 595 HOH HOH . C 3 HOH A 10 710 719 HOH HOH . C 3 HOH A 11 711 554 HOH HOH . C 3 HOH A 12 712 683 HOH HOH . C 3 HOH A 13 713 665 HOH HOH . C 3 HOH A 14 714 624 HOH HOH . C 3 HOH A 15 715 684 HOH HOH . C 3 HOH A 16 716 574 HOH HOH . C 3 HOH A 17 717 599 HOH HOH . C 3 HOH A 18 718 577 HOH HOH . C 3 HOH A 19 719 623 HOH HOH . C 3 HOH A 20 720 688 HOH HOH . C 3 HOH A 21 721 738 HOH HOH . C 3 HOH A 22 722 626 HOH HOH . C 3 HOH A 23 723 853 HOH HOH . C 3 HOH A 24 724 659 HOH HOH . C 3 HOH A 25 725 791 HOH HOH . C 3 HOH A 26 726 849 HOH HOH . C 3 HOH A 27 727 608 HOH HOH . C 3 HOH A 28 728 836 HOH HOH . C 3 HOH A 29 729 686 HOH HOH . C 3 HOH A 30 730 627 HOH HOH . C 3 HOH A 31 731 669 HOH HOH . C 3 HOH A 32 732 658 HOH HOH . C 3 HOH A 33 733 693 HOH HOH . C 3 HOH A 34 734 552 HOH HOH . C 3 HOH A 35 735 553 HOH HOH . C 3 HOH A 36 736 555 HOH HOH . C 3 HOH A 37 737 556 HOH HOH . C 3 HOH A 38 738 557 HOH HOH . C 3 HOH A 39 739 558 HOH HOH . C 3 HOH A 40 740 559 HOH HOH . C 3 HOH A 41 741 560 HOH HOH . C 3 HOH A 42 742 561 HOH HOH . C 3 HOH A 43 743 562 HOH HOH . C 3 HOH A 44 744 563 HOH HOH . C 3 HOH A 45 745 564 HOH HOH . C 3 HOH A 46 746 565 HOH HOH . C 3 HOH A 47 747 566 HOH HOH . C 3 HOH A 48 748 567 HOH HOH . C 3 HOH A 49 749 568 HOH HOH . C 3 HOH A 50 750 569 HOH HOH . C 3 HOH A 51 751 570 HOH HOH . C 3 HOH A 52 752 571 HOH HOH . C 3 HOH A 53 753 572 HOH HOH . C 3 HOH A 54 754 573 HOH HOH . C 3 HOH A 55 755 575 HOH HOH . C 3 HOH A 56 756 576 HOH HOH . C 3 HOH A 57 757 578 HOH HOH . C 3 HOH A 58 758 579 HOH HOH . C 3 HOH A 59 759 580 HOH HOH . C 3 HOH A 60 760 583 HOH HOH . C 3 HOH A 61 761 584 HOH HOH . C 3 HOH A 62 762 585 HOH HOH . C 3 HOH A 63 763 587 HOH HOH . C 3 HOH A 64 764 588 HOH HOH . C 3 HOH A 65 765 589 HOH HOH . C 3 HOH A 66 766 590 HOH HOH . C 3 HOH A 67 767 591 HOH HOH . C 3 HOH A 68 768 592 HOH HOH . C 3 HOH A 69 769 593 HOH HOH . C 3 HOH A 70 770 594 HOH HOH . C 3 HOH A 71 771 596 HOH HOH . C 3 HOH A 72 772 597 HOH HOH . C 3 HOH A 73 773 598 HOH HOH . C 3 HOH A 74 774 600 HOH HOH . C 3 HOH A 75 775 601 HOH HOH . C 3 HOH A 76 776 602 HOH HOH . C 3 HOH A 77 777 603 HOH HOH . C 3 HOH A 78 778 604 HOH HOH . C 3 HOH A 79 779 606 HOH HOH . C 3 HOH A 80 780 607 HOH HOH . C 3 HOH A 81 781 609 HOH HOH . C 3 HOH A 82 782 610 HOH HOH . C 3 HOH A 83 783 611 HOH HOH . C 3 HOH A 84 784 612 HOH HOH . C 3 HOH A 85 785 613 HOH HOH . C 3 HOH A 86 786 614 HOH HOH . C 3 HOH A 87 787 615 HOH HOH . C 3 HOH A 88 788 617 HOH HOH . C 3 HOH A 89 789 618 HOH HOH . C 3 HOH A 90 790 619 HOH HOH . C 3 HOH A 91 791 620 HOH HOH . C 3 HOH A 92 792 621 HOH HOH . C 3 HOH A 93 793 622 HOH HOH . C 3 HOH A 94 794 628 HOH HOH . C 3 HOH A 95 795 630 HOH HOH . C 3 HOH A 96 796 631 HOH HOH . C 3 HOH A 97 797 632 HOH HOH . C 3 HOH A 98 798 633 HOH HOH . C 3 HOH A 99 799 634 HOH HOH . C 3 HOH A 100 800 635 HOH HOH . C 3 HOH A 101 801 636 HOH HOH . C 3 HOH A 102 802 637 HOH HOH . C 3 HOH A 103 803 638 HOH HOH . C 3 HOH A 104 804 639 HOH HOH . C 3 HOH A 105 805 640 HOH HOH . C 3 HOH A 106 806 642 HOH HOH . C 3 HOH A 107 807 643 HOH HOH . C 3 HOH A 108 808 644 HOH HOH . C 3 HOH A 109 809 645 HOH HOH . C 3 HOH A 110 810 646 HOH HOH . C 3 HOH A 111 811 647 HOH HOH . C 3 HOH A 112 812 648 HOH HOH . C 3 HOH A 113 813 649 HOH HOH . C 3 HOH A 114 814 650 HOH HOH . C 3 HOH A 115 815 651 HOH HOH . C 3 HOH A 116 816 652 HOH HOH . C 3 HOH A 117 817 653 HOH HOH . C 3 HOH A 118 818 654 HOH HOH . C 3 HOH A 119 819 656 HOH HOH . C 3 HOH A 120 820 657 HOH HOH . C 3 HOH A 121 821 661 HOH HOH . C 3 HOH A 122 822 662 HOH HOH . C 3 HOH A 123 823 666 HOH HOH . C 3 HOH A 124 824 667 HOH HOH . C 3 HOH A 125 825 670 HOH HOH . C 3 HOH A 126 826 671 HOH HOH . C 3 HOH A 127 827 672 HOH HOH . C 3 HOH A 128 828 674 HOH HOH . C 3 HOH A 129 829 676 HOH HOH . C 3 HOH A 130 830 680 HOH HOH . C 3 HOH A 131 831 681 HOH HOH . C 3 HOH A 132 832 682 HOH HOH . C 3 HOH A 133 833 689 HOH HOH . C 3 HOH A 134 834 690 HOH HOH . C 3 HOH A 135 835 696 HOH HOH . C 3 HOH A 136 836 697 HOH HOH . C 3 HOH A 137 837 706 HOH HOH . C 3 HOH A 138 838 708 HOH HOH . C 3 HOH A 139 839 716 HOH HOH . C 3 HOH A 140 840 730 HOH HOH . C 3 HOH A 141 841 732 HOH HOH . C 3 HOH A 142 842 736 HOH HOH . C 3 HOH A 143 843 739 HOH HOH . C 3 HOH A 144 844 786 HOH HOH . C 3 HOH A 145 845 787 HOH HOH . C 3 HOH A 146 846 788 HOH HOH . C 3 HOH A 147 847 789 HOH HOH . C 3 HOH A 148 848 790 HOH HOH . C 3 HOH A 149 849 795 HOH HOH . C 3 HOH A 150 850 797 HOH HOH . C 3 HOH A 151 851 834 HOH HOH . C 3 HOH A 152 852 838 HOH HOH . C 3 HOH A 153 853 839 HOH HOH . C 3 HOH A 154 854 840 HOH HOH . C 3 HOH A 155 855 841 HOH HOH . C 3 HOH A 156 856 842 HOH HOH . C 3 HOH A 157 857 848 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 GAP . . . B 2 36.897 23.147 1.489 1 26.37 ? N GAP 601 A 1 HETATM 2 C CA GAP . . . B 2 36.46 22.432 2.724 1 32.47 ? CA GAP 601 A 1 HETATM 3 C C GAP . . . B 2 36.971 21.008 2.621 1 40.11 ? C GAP 601 A 1 HETATM 4 O O GAP . . . B 2 36.801 20.182 3.499 1 44.62 ? O GAP 601 A 1 HETATM 5 P PA GAP . . . B 2 38.379 19.254 1.04 1 30.14 ? PA GAP 601 A 1 HETATM 6 O O1A GAP . . . B 2 38.624 19.369 -0.444 1 28.01 ? O1A GAP 601 A 1 HETATM 7 O O2A GAP . . . B 2 39.527 18.975 1.996 1 34.8 ? O2A GAP 601 A 1 HETATM 8 O O3A GAP . . . B 2 37.677 20.648 1.405 1 30.94 ? O3A GAP 601 A 1 HETATM 9 C C5' GAP . . . B 2 36.128 18.118 0.32 1 27.31 ? C5' GAP 601 A 1 HETATM 10 O O5' GAP . . . B 2 37.236 18.137 1.221 1 32.16 ? O5' GAP 601 A 1 HETATM 11 C C4' GAP . . . B 2 35.239 16.94 0.664 1 26.73 ? C4' GAP 601 A 1 HETATM 12 O O4' GAP . . . B 2 34.945 16.96 2.063 1 30.58 ? O4' GAP 601 A 1 HETATM 13 C C3' GAP . . . B 2 33.875 17.012 0.014 1 27.56 ? C3' GAP 601 A 1 HETATM 14 O O3' GAP . . . B 2 33.911 16.501 -1.318 1 26.99 ? O3' GAP 601 A 1 HETATM 15 C C2' GAP . . . B 2 33.031 16.173 0.958 1 28.06 ? C2' GAP 601 A 1 HETATM 16 O O2' GAP . . . B 2 33.284 14.792 0.751 1 23.13 ? O2' GAP 601 A 1 HETATM 17 C C1' GAP . . . B 2 33.642 16.434 2.31 1 26.93 ? C1' GAP 601 A 1 HETATM 18 N N9 GAP . . . B 2 32.844 17.46 3.018 1 26.75 ? N9 GAP 601 A 1 HETATM 19 C C8 GAP . . . B 2 33.124 18.776 3.066 1 24.07 ? C8 GAP 601 A 1 HETATM 20 N N7 GAP . . . B 2 32.208 19.444 3.811 1 23.89 ? N7 GAP 601 A 1 HETATM 21 C C5 GAP . . . B 2 31.307 18.535 4.243 1 24.59 ? C5 GAP 601 A 1 HETATM 22 C C6 GAP . . . B 2 30.075 18.572 5.058 1 23.82 ? C6 GAP 601 A 1 HETATM 23 N N6 GAP . . . B 2 29.629 19.74 5.594 1 23.6 ? N6 GAP 601 A 1 HETATM 24 N N1 GAP . . . B 2 29.43 17.399 5.263 1 28.61 ? N1 GAP 601 A 1 HETATM 25 C C2 GAP . . . B 2 29.873 16.23 4.745 1 28.26 ? C2 GAP 601 A 1 HETATM 26 N N3 GAP . . . B 2 30.987 16.132 3.994 1 26.95 ? N3 GAP 601 A 1 HETATM 27 C C4 GAP . . . B 2 31.733 17.229 3.719 1 23.82 ? C4 GAP 601 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #