data_1XU4 # _model_server_result.job_id gslGJw7gJ8BcJEJBGF_Hkw _model_server_result.datetime_utc '2025-07-15 01:15:03' _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 1xu4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 1XU4 # _exptl.entry_id 1XU4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 4 _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 90 _cell.angle_gamma 120 _cell.entry_id 1XU4 _cell.length_a 83.858 _cell.length_b 83.858 _cell.length_c 104.766 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XU4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _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 _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 4 _struct_asym.id F _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 O GLN 98 A GLN 98 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? metalc ? metalc2 A OG1 THR 112 A THR 112 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc3 A OE1 GLU 151 A GLU 151 1_555 E K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.699 ? metalc ? metalc4 A OD1 ASP 246 A ASP 246 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc5 A O GLY 279 A GLY 279 5_564 D K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.732 ? metalc ? metalc6 A O HIS 280 A HIS 280 5_564 D K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.685 ? metalc ? metalc7 A O HIS 280 A HIS 280 5_564 E K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc8 A O ALA 282 A ALA 282 5_564 D K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? metalc ? metalc9 A OD1 ASP 302 A ASP 302 5_564 D K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc10 F O1B ANP . A ANP 401 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc11 F O1G ANP . A ANP 401 1_555 B MG MG . A MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc12 F O2G ANP . A ANP 401 1_555 D K K . A K 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc13 F O1G ANP . A ANP 401 1_555 E K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.865 ? metalc ? metalc14 F O2G ANP . A ANP 401 1_555 E K K . A K 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.815 ? metalc ? metalc15 B MG MG . A MG 501 1_555 G O HOH . A HOH 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? metalc ? metalc16 B MG MG . A MG 501 1_555 G O HOH . A HOH 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc17 B MG MG . A MG 501 1_555 G O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.982 ? metalc ? metalc18 C MG MG . A MG 502 1_555 G O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc19 C MG MG . A MG 502 1_555 G O HOH . A HOH 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc20 C MG MG . A MG 502 1_555 G O HOH . A HOH 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc21 C MG MG . A MG 502 1_555 G O HOH . A HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? metalc ? metalc22 D K K . A K 503 1_555 G O HOH . A HOH 612 5_564 ? ? ? ? ? ? ? ? ? ? ? ? 3.594 ? metalc ? metalc23 D K K . A K 503 1_555 G O HOH . A HOH 695 5_564 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? metalc ? metalc24 E K K . A K 504 1_555 G O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.368 ? # _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 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 1XU4 _atom_sites.fract_transf_matrix[1][1] 0.011925 _atom_sites.fract_transf_matrix[1][2] 0.006885 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01377 _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] 0.009545 _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 MG A 1 501 501 MG MG . C 2 MG A 1 502 502 MG MG . D 3 K A 1 503 503 K K . E 3 K A 1 504 504 K K . F 4 ANP A 1 401 401 ANP ANP . G 5 HOH A 1 601 601 HOH TIP . G 5 HOH A 2 602 602 HOH TIP . G 5 HOH A 3 603 603 HOH TIP . G 5 HOH A 4 604 604 HOH TIP . G 5 HOH A 5 605 605 HOH TIP . G 5 HOH A 6 606 606 HOH TIP . G 5 HOH A 7 607 607 HOH TIP . G 5 HOH A 8 609 609 HOH TIP . G 5 HOH A 9 611 611 HOH TIP . G 5 HOH A 10 612 612 HOH TIP . G 5 HOH A 11 613 613 HOH TIP . G 5 HOH A 12 614 614 HOH TIP . G 5 HOH A 13 615 615 HOH TIP . G 5 HOH A 14 616 616 HOH TIP . G 5 HOH A 15 617 617 HOH TIP . G 5 HOH A 16 618 618 HOH TIP . G 5 HOH A 17 619 619 HOH TIP . G 5 HOH A 18 620 620 HOH TIP . G 5 HOH A 19 621 621 HOH TIP . G 5 HOH A 20 622 622 HOH TIP . G 5 HOH A 21 623 623 HOH TIP . G 5 HOH A 22 624 624 HOH TIP . G 5 HOH A 23 625 625 HOH TIP . G 5 HOH A 24 626 626 HOH TIP . G 5 HOH A 25 627 627 HOH TIP . G 5 HOH A 26 628 628 HOH TIP . G 5 HOH A 27 629 629 HOH TIP . G 5 HOH A 28 630 630 HOH TIP . G 5 HOH A 29 631 631 HOH TIP . G 5 HOH A 30 632 632 HOH TIP . G 5 HOH A 31 633 633 HOH TIP . G 5 HOH A 32 634 634 HOH TIP . G 5 HOH A 33 635 635 HOH TIP . G 5 HOH A 34 636 636 HOH TIP . G 5 HOH A 35 637 637 HOH TIP . G 5 HOH A 36 638 638 HOH TIP . G 5 HOH A 37 639 639 HOH TIP . G 5 HOH A 38 640 640 HOH TIP . G 5 HOH A 39 641 641 HOH TIP . G 5 HOH A 40 642 642 HOH TIP . G 5 HOH A 41 643 643 HOH TIP . G 5 HOH A 42 644 644 HOH TIP . G 5 HOH A 43 645 645 HOH TIP . G 5 HOH A 44 646 646 HOH TIP . G 5 HOH A 45 647 647 HOH TIP . G 5 HOH A 46 648 648 HOH TIP . G 5 HOH A 47 649 649 HOH TIP . G 5 HOH A 48 650 650 HOH TIP . G 5 HOH A 49 651 651 HOH TIP . G 5 HOH A 50 652 652 HOH TIP . G 5 HOH A 51 653 653 HOH TIP . G 5 HOH A 52 654 654 HOH TIP . G 5 HOH A 53 655 655 HOH TIP . G 5 HOH A 54 656 656 HOH TIP . G 5 HOH A 55 657 657 HOH TIP . G 5 HOH A 56 658 658 HOH TIP . G 5 HOH A 57 659 659 HOH TIP . G 5 HOH A 58 660 660 HOH TIP . G 5 HOH A 59 661 661 HOH TIP . G 5 HOH A 60 662 662 HOH TIP . G 5 HOH A 61 663 663 HOH TIP . G 5 HOH A 62 664 664 HOH TIP . G 5 HOH A 63 665 665 HOH TIP . G 5 HOH A 64 666 666 HOH TIP . G 5 HOH A 65 667 667 HOH TIP . G 5 HOH A 66 668 668 HOH TIP . G 5 HOH A 67 669 669 HOH TIP . G 5 HOH A 68 670 670 HOH TIP . G 5 HOH A 69 671 671 HOH TIP . G 5 HOH A 70 672 672 HOH TIP . G 5 HOH A 71 673 673 HOH TIP . G 5 HOH A 72 674 674 HOH TIP . G 5 HOH A 73 675 675 HOH TIP . G 5 HOH A 74 676 676 HOH TIP . G 5 HOH A 75 677 677 HOH TIP . G 5 HOH A 76 678 678 HOH TIP . G 5 HOH A 77 679 679 HOH TIP . G 5 HOH A 78 680 680 HOH TIP . G 5 HOH A 79 681 681 HOH TIP . G 5 HOH A 80 682 682 HOH TIP . G 5 HOH A 81 683 683 HOH TIP . G 5 HOH A 82 684 684 HOH TIP . G 5 HOH A 83 685 685 HOH TIP . G 5 HOH A 84 686 686 HOH TIP . G 5 HOH A 85 687 687 HOH TIP . G 5 HOH A 86 688 688 HOH TIP . G 5 HOH A 87 689 689 HOH TIP . G 5 HOH A 88 690 690 HOH TIP . G 5 HOH A 89 691 691 HOH TIP . G 5 HOH A 90 692 692 HOH TIP . G 5 HOH A 91 693 693 HOH TIP . G 5 HOH A 92 694 694 HOH TIP . G 5 HOH A 93 695 695 HOH TIP . G 5 HOH A 94 696 696 HOH TIP . G 5 HOH A 95 697 697 HOH TIP . G 5 HOH A 96 698 698 HOH TIP . G 5 HOH A 97 699 699 HOH TIP . G 5 HOH A 98 700 700 HOH TIP . G 5 HOH A 99 701 701 HOH TIP . G 5 HOH A 100 702 702 HOH TIP . G 5 HOH A 101 703 703 HOH TIP . G 5 HOH A 102 704 704 HOH TIP . G 5 HOH A 103 705 705 HOH TIP . G 5 HOH A 104 706 706 HOH TIP . G 5 HOH A 105 707 707 HOH TIP . G 5 HOH A 106 708 708 HOH TIP . # 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 . . . F 4 27.971 59.371 -9.398 1 31.37 ? PG ANP 401 A 1 HETATM 2 O O1G ANP . . . F 4 27.314 58.991 -8.186 1 31.1 ? O1G ANP 401 A 1 HETATM 3 O O2G ANP . . . F 4 27.208 60.482 -10.023 1 32.22 ? O2G ANP 401 A 1 HETATM 4 O O3G ANP . . . F 4 29.301 59.841 -9.099 1 32.87 ? O3G ANP 401 A 1 HETATM 5 P PB ANP . . . F 4 28.39 56.565 -10.079 1 28.08 ? PB ANP 401 A 1 HETATM 6 O O1B ANP . . . F 4 27.573 56.114 -8.914 1 25.3 ? O1B ANP 401 A 1 HETATM 7 O O2B ANP . . . F 4 29.808 56.437 -9.766 1 30.11 ? O2B ANP 401 A 1 HETATM 8 N N3B ANP . . . F 4 28.047 58.069 -10.48 1 28.3 ? N3B ANP 401 A 1 HETATM 9 P PA ANP . . . F 4 26.74 54.747 -11.528 1 32.42 ? PA ANP 401 A 1 HETATM 10 O O1A ANP . . . F 4 26.742 53.591 -10.514 1 37.07 ? O1A ANP 401 A 1 HETATM 11 O O2A ANP . . . F 4 25.548 55.593 -11.324 1 35.14 ? O2A ANP 401 A 1 HETATM 12 O O3A ANP . . . F 4 28.105 55.623 -11.356 1 33.58 ? O3A ANP 401 A 1 HETATM 13 O O5' ANP . . . F 4 26.738 54.111 -13.047 1 35.33 ? O5' ANP 401 A 1 HETATM 14 C C5' ANP . . . F 4 26.219 54.895 -14.24 1 37.16 ? C5' ANP 401 A 1 HETATM 15 C C4' ANP . . . F 4 26.424 54.178 -15.345 1 38.33 ? C4' ANP 401 A 1 HETATM 16 O O4' ANP . . . F 4 25.928 52.794 -15.151 1 38.92 ? O4' ANP 401 A 1 HETATM 17 C C3' ANP . . . F 4 25.514 54.685 -16.494 1 37.07 ? C3' ANP 401 A 1 HETATM 18 O O3' ANP . . . F 4 25.764 55.963 -16.945 1 39.3 ? O3' ANP 401 A 1 HETATM 19 C C2' ANP . . . F 4 25.337 53.428 -17.401 1 37.48 ? C2' ANP 401 A 1 HETATM 20 O O2' ANP . . . F 4 26.47 53.413 -18.441 1 39.96 ? O2' ANP 401 A 1 HETATM 21 C C1' ANP . . . F 4 25.564 52.254 -16.438 1 37.01 ? C1' ANP 401 A 1 HETATM 22 N N9 ANP . . . F 4 24.356 51.663 -16.334 1 37.43 ? N9 ANP 401 A 1 HETATM 23 C C8 ANP . . . F 4 23.363 51.924 -15.366 1 35.23 ? C8 ANP 401 A 1 HETATM 24 N N7 ANP . . . F 4 22.339 51.181 -15.602 1 35.69 ? N7 ANP 401 A 1 HETATM 25 C C5 ANP . . . F 4 22.582 50.418 -16.694 1 34.74 ? C5 ANP 401 A 1 HETATM 26 C C6 ANP . . . F 4 21.844 49.47 -17.384 1 35.07 ? C6 ANP 401 A 1 HETATM 27 N N6 ANP . . . F 4 20.591 49.153 -16.977 1 33.19 ? N6 ANP 401 A 1 HETATM 28 N N1 ANP . . . F 4 22.415 48.843 -18.52 1 34.55 ? N1 ANP 401 A 1 HETATM 29 C C2 ANP . . . F 4 23.735 49.174 -18.961 1 35.84 ? C2 ANP 401 A 1 HETATM 30 N N3 ANP . . . F 4 24.484 50.108 -18.305 1 36.51 ? N3 ANP 401 A 1 HETATM 31 C C4 ANP . . . F 4 23.852 50.708 -17.161 1 36.28 ? C4 ANP 401 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #