data_5ZNK # _model_server_result.job_id fKCnonhcITqyqVY9Lh0yZA _model_server_result.datetime_utc '2024-11-13 13:29:33' _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 5znk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 5ZNK # _exptl.entry_id 5ZNK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 99.33 _cell.angle_gamma 90 _cell.entry_id 5ZNK _cell.length_a 129.575 _cell.length_b 77.204 _cell.length_c 73.965 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZNK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _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,F,G _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' 2_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -11.991244 0 72.986514 # _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 # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OE2 GLU 406 A GLU 406 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc2 A OE1 GLN 409 A GLN 409 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc3 B O2G ANP . A ANP 601 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc4 B O2B ANP . A ANP 601 1_555 C MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc5 B O1B ANP . A ANP 601 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc6 B O1A ANP . A ANP 601 1_555 D MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc7 C MG MG . A MG 602 1_555 G O HOH . A HOH 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc8 C MG MG . A MG 602 1_555 G O HOH . A HOH 721 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc9 C MG MG . A MG 602 1_555 G O HOH . A HOH 760 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc10 C MG MG . A MG 602 1_555 G O HOH . A HOH 787 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc11 D MG MG . A MG 603 1_555 G O HOH . A HOH 776 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc12 D MG MG . A MG 603 1_555 G O HOH . A HOH 793 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 55 n n PG O2G ANP sing 56 n n PG O3G ANP sing 57 n n PG N3B ANP sing 58 n n O2G HOG2 ANP sing 59 n n O3G HOG3 ANP sing 60 n n PB O1B ANP doub 61 n n PB O2B ANP sing 62 n n PB N3B ANP sing 63 n n PB O3A ANP sing 64 n n O2B HOB2 ANP sing 65 n n N3B HNB1 ANP sing 66 n n PA O1A ANP doub 67 n n PA O2A ANP sing 68 n n PA O3A ANP sing 69 n n PA O5' ANP sing 70 n n O2A HOA2 ANP sing 71 n n O5' C5' ANP sing 72 n n C5' C4' ANP sing 73 n n C5' "H5'1" ANP sing 74 n n C5' "H5'2" ANP sing 75 n n C4' O4' ANP sing 76 n n C4' C3' ANP sing 77 n n C4' H4' ANP sing 78 n n O4' C1' ANP sing 79 n n C3' O3' ANP sing 80 n n C3' C2' ANP sing 81 n n C3' H3' ANP sing 82 n n O3' HO3' ANP sing 83 n n C2' O2' ANP sing 84 n n C2' C1' ANP sing 85 n n C2' H2' ANP sing 86 n n O2' HO2' ANP sing 87 n n C1' N9 ANP sing 88 n n C1' H1' ANP sing 89 n n N9 C8 ANP sing 90 n y N9 C4 ANP sing 91 n y C8 N7 ANP doub 92 n y C8 H8 ANP sing 93 n n N7 C5 ANP sing 94 n y C5 C6 ANP sing 95 n y C5 C4 ANP doub 96 n y C6 N6 ANP sing 97 n n C6 N1 ANP doub 98 n y N6 HN61 ANP sing 99 n n N6 HN62 ANP sing 100 n n N1 C2 ANP sing 101 n y C2 N3 ANP doub 102 n y C2 H2 ANP sing 103 n n N3 C4 ANP sing 104 n y # _atom_sites.entry_id 5ZNK _atom_sites.fract_transf_matrix[1][1] 0.007718 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001268 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012953 _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] 0.013701 _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 ANP A 1 601 5000 ANP ANP . C 3 MG A 1 602 1 MG MG . D 3 MG A 1 603 2 MG MG . E 4 GOL A 1 604 1 GOL GOL . F 5 9G3 A 1 605 1 9G3 DOF . G 6 HOH A 1 701 5 HOH HOH . G 6 HOH A 2 702 98 HOH HOH . G 6 HOH A 3 703 104 HOH HOH . G 6 HOH A 4 704 58 HOH HOH . G 6 HOH A 5 705 84 HOH HOH . G 6 HOH A 6 706 77 HOH HOH . G 6 HOH A 7 707 124 HOH HOH . G 6 HOH A 8 708 4 HOH HOH . G 6 HOH A 9 709 12 HOH HOH . G 6 HOH A 10 710 108 HOH HOH . G 6 HOH A 11 711 49 HOH HOH . G 6 HOH A 12 712 105 HOH HOH . G 6 HOH A 13 713 115 HOH HOH . G 6 HOH A 14 714 23 HOH HOH . G 6 HOH A 15 715 50 HOH HOH . G 6 HOH A 16 716 53 HOH HOH . G 6 HOH A 17 717 78 HOH HOH . G 6 HOH A 18 718 30 HOH HOH . G 6 HOH A 19 719 120 HOH HOH . G 6 HOH A 20 720 85 HOH HOH . G 6 HOH A 21 721 65 HOH HOH . G 6 HOH A 22 722 69 HOH HOH . G 6 HOH A 23 723 62 HOH HOH . G 6 HOH A 24 724 15 HOH HOH . G 6 HOH A 25 725 48 HOH HOH . G 6 HOH A 26 726 118 HOH HOH . G 6 HOH A 27 727 56 HOH HOH . G 6 HOH A 28 728 127 HOH HOH . G 6 HOH A 29 729 63 HOH HOH . G 6 HOH A 30 730 1 HOH HOH . G 6 HOH A 31 731 22 HOH HOH . G 6 HOH A 32 732 114 HOH HOH . G 6 HOH A 33 733 20 HOH HOH . G 6 HOH A 34 734 60 HOH HOH . G 6 HOH A 35 735 55 HOH HOH . G 6 HOH A 36 736 10 HOH HOH . G 6 HOH A 37 737 6 HOH HOH . G 6 HOH A 38 738 100 HOH HOH . G 6 HOH A 39 739 89 HOH HOH . G 6 HOH A 40 740 40 HOH HOH . G 6 HOH A 41 741 66 HOH HOH . G 6 HOH A 42 742 36 HOH HOH . G 6 HOH A 43 743 8 HOH HOH . G 6 HOH A 44 744 47 HOH HOH . G 6 HOH A 45 745 73 HOH HOH . G 6 HOH A 46 746 41 HOH HOH . G 6 HOH A 47 747 14 HOH HOH . G 6 HOH A 48 748 3 HOH HOH . G 6 HOH A 49 749 43 HOH HOH . G 6 HOH A 50 750 116 HOH HOH . G 6 HOH A 51 751 128 HOH HOH . G 6 HOH A 52 752 9 HOH HOH . G 6 HOH A 53 753 87 HOH HOH . G 6 HOH A 54 754 21 HOH HOH . G 6 HOH A 55 755 11 HOH HOH . G 6 HOH A 56 756 29 HOH HOH . G 6 HOH A 57 757 32 HOH HOH . G 6 HOH A 58 758 88 HOH HOH . G 6 HOH A 59 759 35 HOH HOH . G 6 HOH A 60 760 31 HOH HOH . G 6 HOH A 61 761 75 HOH HOH . G 6 HOH A 62 762 102 HOH HOH . G 6 HOH A 63 763 18 HOH HOH . G 6 HOH A 64 764 42 HOH HOH . G 6 HOH A 65 765 59 HOH HOH . G 6 HOH A 66 766 79 HOH HOH . G 6 HOH A 67 767 119 HOH HOH . G 6 HOH A 68 768 27 HOH HOH . G 6 HOH A 69 769 112 HOH HOH . G 6 HOH A 70 770 25 HOH HOH . G 6 HOH A 71 771 72 HOH HOH . G 6 HOH A 72 772 125 HOH HOH . G 6 HOH A 73 773 2 HOH HOH . G 6 HOH A 74 774 17 HOH HOH . G 6 HOH A 75 775 33 HOH HOH . G 6 HOH A 76 776 95 HOH HOH . G 6 HOH A 77 777 80 HOH HOH . G 6 HOH A 78 778 39 HOH HOH . G 6 HOH A 79 779 107 HOH HOH . G 6 HOH A 80 780 81 HOH HOH . G 6 HOH A 81 781 101 HOH HOH . G 6 HOH A 82 782 70 HOH HOH . G 6 HOH A 83 783 13 HOH HOH . G 6 HOH A 84 784 26 HOH HOH . G 6 HOH A 85 785 52 HOH HOH . G 6 HOH A 86 786 94 HOH HOH . G 6 HOH A 87 787 93 HOH HOH . G 6 HOH A 88 788 96 HOH HOH . G 6 HOH A 89 789 68 HOH HOH . G 6 HOH A 90 790 61 HOH HOH . G 6 HOH A 91 791 45 HOH HOH . G 6 HOH A 92 792 28 HOH HOH . G 6 HOH A 93 793 92 HOH HOH . G 6 HOH A 94 794 16 HOH HOH . G 6 HOH A 95 795 126 HOH HOH . G 6 HOH A 96 796 37 HOH HOH . G 6 HOH A 97 797 83 HOH HOH . G 6 HOH A 98 798 99 HOH HOH . G 6 HOH A 99 799 34 HOH HOH . G 6 HOH A 100 800 97 HOH HOH . G 6 HOH A 101 801 24 HOH HOH . G 6 HOH A 102 802 74 HOH HOH . G 6 HOH A 103 803 51 HOH HOH . G 6 HOH A 104 804 44 HOH HOH . G 6 HOH A 105 805 103 HOH HOH . G 6 HOH A 106 806 67 HOH HOH . G 6 HOH A 107 807 46 HOH HOH . G 6 HOH A 108 808 122 HOH HOH . G 6 HOH A 109 809 71 HOH HOH . G 6 HOH A 110 810 110 HOH HOH . G 6 HOH A 111 811 7 HOH HOH . G 6 HOH A 112 812 54 HOH HOH . G 6 HOH A 113 813 109 HOH HOH . G 6 HOH A 114 814 38 HOH HOH . G 6 HOH A 115 815 82 HOH HOH . G 6 HOH A 116 816 86 HOH HOH . G 6 HOH A 117 817 19 HOH HOH . G 6 HOH A 118 818 76 HOH HOH . G 6 HOH A 119 819 91 HOH HOH . G 6 HOH A 120 820 129 HOH HOH . G 6 HOH A 121 821 90 HOH HOH . G 6 HOH A 122 822 111 HOH HOH . G 6 HOH A 123 823 64 HOH HOH . G 6 HOH A 124 824 113 HOH HOH . G 6 HOH A 125 825 117 HOH HOH . G 6 HOH A 126 826 57 HOH HOH . G 6 HOH A 127 827 106 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 P PG ANP . . . B 2 3.582 6.653 19.15 1 19.52 ? PG ANP 601 A 1 HETATM 2 O O1G ANP . . . B 2 4.669 7.166 18.25 1 21.05 ? O1G ANP 601 A 1 HETATM 3 O O2G ANP . . . B 2 2.924 7.759 19.936 1 20.5 ? O2G ANP 601 A 1 HETATM 4 O O3G ANP . . . B 2 2.591 5.706 18.525 1 19.41 ? O3G ANP 601 A 1 HETATM 5 P PB ANP . . . B 2 5.331 6.182 21.601 1 18.07 ? PB ANP 601 A 1 HETATM 6 O O1B ANP . . . B 2 6.776 6.016 21.216 1 18.13 ? O1B ANP 601 A 1 HETATM 7 O O2B ANP . . . B 2 4.818 7.504 22.111 1 18.04 ? O2B ANP 601 A 1 HETATM 8 N N3B ANP . . . B 2 4.386 5.605 20.259 1 19.03 ? N3B ANP 601 A 1 HETATM 9 P PA ANP . . . B 2 5.922 4.657 23.941 1 15.94 ? PA ANP 601 A 1 HETATM 10 O O1A ANP . . . B 2 7.136 3.905 23.467 1 16.62 ? O1A ANP 601 A 1 HETATM 11 O O2A ANP . . . B 2 6.052 5.893 24.773 1 15.79 ? O2A ANP 601 A 1 HETATM 12 O O3A ANP . . . B 2 5.007 5.051 22.691 1 17.04 ? O3A ANP 601 A 1 HETATM 13 O O5' ANP . . . B 2 4.89 3.654 24.673 1 15.45 ? O5' ANP 601 A 1 HETATM 14 C C5' ANP . . . B 2 5.055 2.229 24.678 1 14.12 ? C5' ANP 601 A 1 HETATM 15 C C4' ANP . . . B 2 3.892 1.565 23.951 1 13.68 ? C4' ANP 601 A 1 HETATM 16 O O4' ANP . . . B 2 2.635 2.101 24.392 1 13.16 ? O4' ANP 601 A 1 HETATM 17 C C3' ANP . . . B 2 3.924 1.785 22.448 1 13.27 ? C3' ANP 601 A 1 HETATM 18 O O3' ANP . . . B 2 4.744 0.837 21.76 1 13.97 ? O3' ANP 601 A 1 HETATM 19 C C2' ANP . . . B 2 2.467 1.665 22.076 1 13.18 ? C2' ANP 601 A 1 HETATM 20 O O2' ANP . . . B 2 2.163 0.302 21.789 1 12.89 ? O2' ANP 601 A 1 HETATM 21 C C1' ANP . . . B 2 1.702 2.123 23.311 1 12.82 ? C1' ANP 601 A 1 HETATM 22 N N9 ANP . . . B 2 1.134 3.476 23.137 1 12.2 ? N9 ANP 601 A 1 HETATM 23 C C8 ANP . . . B 2 1.816 4.627 23.098 1 12.08 ? C8 ANP 601 A 1 HETATM 24 N N7 ANP . . . B 2 0.983 5.684 22.931 1 11.99 ? N7 ANP 601 A 1 HETATM 25 C C5 ANP . . . B 2 -0.265 5.205 22.86 1 11.83 ? C5 ANP 601 A 1 HETATM 26 C C6 ANP . . . B 2 -1.61 5.776 22.689 1 11.81 ? C6 ANP 601 A 1 HETATM 27 N N6 ANP . . . B 2 -1.767 7.108 22.567 1 11.94 ? N6 ANP 601 A 1 HETATM 28 N N1 ANP . . . B 2 -2.661 4.927 22.664 1 11.93 ? N1 ANP 601 A 1 HETATM 29 C C2 ANP . . . B 2 -2.494 3.596 22.795 1 11.83 ? C2 ANP 601 A 1 HETATM 30 N N3 ANP . . . B 2 -1.292 3.016 22.96 1 11.62 ? N3 ANP 601 A 1 HETATM 31 C C4 ANP . . . B 2 -0.163 3.75 22.993 1 11.89 ? C4 ANP 601 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 228 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #