data_4WUD # _model_server_result.job_id pkf9zxWYvGs7EWSSOSZpxA _model_server_result.datetime_utc '2025-01-02 18:26:35' _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 4wud # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4WUD # _exptl.entry_id 4WUD _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 90 _cell.angle_gamma 90 _cell.entry_id 4WUD _cell.length_a 87.8 _cell.length_b 141.48 _cell.length_c 80.3 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WUD _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 _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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -40.15 # _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 OD1 ASN 45 A ASN 46 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc2 A O LYS 102 A LYS 103 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc3 A O ASP 104 A ASP 105 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc4 B O2G ANP . A ANP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? metalc ? metalc5 B O2B ANP . A ANP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc6 B O2A ANP . A ANP 401 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.605 ? metalc ? metalc7 C MG MG . A MG 402 1_555 F O HOH . A HOH 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc8 C MG MG . A MG 402 1_555 F O HOH . A HOH 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc9 D NA NA . A NA 403 1_555 F O HOH . A HOH 527 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? metalc ? metalc10 D NA NA . A NA 403 1_555 F O HOH . A HOH 528 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc11 D NA NA . A NA 403 1_555 F O HOH . A HOH 569 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc12 D NA NA . A NA 403 1_555 F O HOH . A HOH 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? # _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 4WUD _atom_sites.fract_transf_matrix[1][1] 0.01139 _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] 0.007068 _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] 0.012453 _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 1 401 401 ANP ANP . C 3 MG A 1 402 405 MG MG . D 4 NA A 1 403 502 NA NA . E 5 CL A 1 404 503 CL CL . F 6 HOH A 1 501 51 HOH HOH . F 6 HOH A 2 502 21 HOH HOH . F 6 HOH A 3 503 41 HOH HOH . F 6 HOH A 4 504 112 HOH HOH . F 6 HOH A 5 505 86 HOH HOH . F 6 HOH A 6 506 78 HOH HOH . F 6 HOH A 7 507 56 HOH HOH . F 6 HOH A 8 508 99 HOH HOH . F 6 HOH A 9 509 24 HOH HOH . F 6 HOH A 10 510 19 HOH HOH . F 6 HOH A 11 511 132 HOH HOH . F 6 HOH A 12 512 74 HOH HOH . F 6 HOH A 13 513 108 HOH HOH . F 6 HOH A 14 514 22 HOH HOH . F 6 HOH A 15 515 12 HOH HOH . F 6 HOH A 16 516 69 HOH HOH . F 6 HOH A 17 517 40 HOH HOH . F 6 HOH A 18 518 123 HOH HOH . F 6 HOH A 19 519 64 HOH HOH . F 6 HOH A 20 520 85 HOH HOH . F 6 HOH A 21 521 134 HOH HOH . F 6 HOH A 22 522 4 HOH HOH . F 6 HOH A 23 523 65 HOH HOH . F 6 HOH A 24 524 52 HOH HOH . F 6 HOH A 25 525 126 HOH HOH . F 6 HOH A 26 526 50 HOH HOH . F 6 HOH A 27 527 63 HOH HOH . F 6 HOH A 28 528 97 HOH HOH . F 6 HOH A 29 529 54 HOH HOH . F 6 HOH A 30 530 125 HOH HOH . F 6 HOH A 31 531 138 HOH HOH . F 6 HOH A 32 532 104 HOH HOH . F 6 HOH A 33 533 116 HOH HOH . F 6 HOH A 34 534 35 HOH HOH . F 6 HOH A 35 535 501 HOH HOH . F 6 HOH A 36 536 1 HOH HOH . F 6 HOH A 37 537 2 HOH HOH . F 6 HOH A 38 538 3 HOH HOH . F 6 HOH A 39 539 5 HOH HOH . F 6 HOH A 40 540 6 HOH HOH . F 6 HOH A 41 541 7 HOH HOH . F 6 HOH A 42 542 8 HOH HOH . F 6 HOH A 43 543 9 HOH HOH . F 6 HOH A 44 544 10 HOH HOH . F 6 HOH A 45 545 11 HOH HOH . F 6 HOH A 46 546 13 HOH HOH . F 6 HOH A 47 547 14 HOH HOH . F 6 HOH A 48 548 15 HOH HOH . F 6 HOH A 49 549 16 HOH HOH . F 6 HOH A 50 550 17 HOH HOH . F 6 HOH A 51 551 18 HOH HOH . F 6 HOH A 52 552 20 HOH HOH . F 6 HOH A 53 553 23 HOH HOH . F 6 HOH A 54 554 25 HOH HOH . F 6 HOH A 55 555 26 HOH HOH . F 6 HOH A 56 556 27 HOH HOH . F 6 HOH A 57 557 28 HOH HOH . F 6 HOH A 58 558 29 HOH HOH . F 6 HOH A 59 559 30 HOH HOH . F 6 HOH A 60 560 31 HOH HOH . F 6 HOH A 61 561 32 HOH HOH . F 6 HOH A 62 562 33 HOH HOH . F 6 HOH A 63 563 34 HOH HOH . F 6 HOH A 64 564 36 HOH HOH . F 6 HOH A 65 565 37 HOH HOH . F 6 HOH A 66 566 38 HOH HOH . F 6 HOH A 67 567 39 HOH HOH . F 6 HOH A 68 568 42 HOH HOH . F 6 HOH A 69 569 43 HOH HOH . F 6 HOH A 70 570 44 HOH HOH . F 6 HOH A 71 571 45 HOH HOH . F 6 HOH A 72 572 46 HOH HOH . F 6 HOH A 73 573 47 HOH HOH . F 6 HOH A 74 574 48 HOH HOH . F 6 HOH A 75 575 49 HOH HOH . F 6 HOH A 76 576 53 HOH HOH . F 6 HOH A 77 577 55 HOH HOH . F 6 HOH A 78 578 57 HOH HOH . F 6 HOH A 79 579 58 HOH HOH . F 6 HOH A 80 580 59 HOH HOH . F 6 HOH A 81 581 60 HOH HOH . F 6 HOH A 82 582 61 HOH HOH . F 6 HOH A 83 583 62 HOH HOH . F 6 HOH A 84 584 66 HOH HOH . F 6 HOH A 85 585 67 HOH HOH . F 6 HOH A 86 586 68 HOH HOH . F 6 HOH A 87 587 70 HOH HOH . F 6 HOH A 88 588 71 HOH HOH . F 6 HOH A 89 589 72 HOH HOH . F 6 HOH A 90 590 73 HOH HOH . F 6 HOH A 91 591 75 HOH HOH . F 6 HOH A 92 592 76 HOH HOH . F 6 HOH A 93 593 77 HOH HOH . F 6 HOH A 94 594 79 HOH HOH . F 6 HOH A 95 595 80 HOH HOH . F 6 HOH A 96 596 81 HOH HOH . F 6 HOH A 97 597 82 HOH HOH . F 6 HOH A 98 598 83 HOH HOH . F 6 HOH A 99 599 84 HOH HOH . F 6 HOH A 100 600 87 HOH HOH . F 6 HOH A 101 601 88 HOH HOH . F 6 HOH A 102 602 89 HOH HOH . F 6 HOH A 103 603 90 HOH HOH . F 6 HOH A 104 604 91 HOH HOH . F 6 HOH A 105 605 92 HOH HOH . F 6 HOH A 106 606 93 HOH HOH . F 6 HOH A 107 607 94 HOH HOH . F 6 HOH A 108 608 95 HOH HOH . F 6 HOH A 109 609 96 HOH HOH . F 6 HOH A 110 610 98 HOH HOH . F 6 HOH A 111 611 100 HOH HOH . F 6 HOH A 112 612 101 HOH HOH . F 6 HOH A 113 613 102 HOH HOH . F 6 HOH A 114 614 103 HOH HOH . F 6 HOH A 115 615 105 HOH HOH . F 6 HOH A 116 616 106 HOH HOH . F 6 HOH A 117 617 107 HOH HOH . F 6 HOH A 118 618 109 HOH HOH . F 6 HOH A 119 619 110 HOH HOH . F 6 HOH A 120 620 111 HOH HOH . F 6 HOH A 121 621 113 HOH HOH . F 6 HOH A 122 622 114 HOH HOH . F 6 HOH A 123 623 115 HOH HOH . F 6 HOH A 124 624 117 HOH HOH . F 6 HOH A 125 625 118 HOH HOH . F 6 HOH A 126 626 119 HOH HOH . F 6 HOH A 127 627 120 HOH HOH . F 6 HOH A 128 628 121 HOH HOH . F 6 HOH A 129 629 122 HOH HOH . F 6 HOH A 130 630 124 HOH HOH . F 6 HOH A 131 631 127 HOH HOH . F 6 HOH A 132 632 128 HOH HOH . F 6 HOH A 133 633 129 HOH HOH . F 6 HOH A 134 634 130 HOH HOH . F 6 HOH A 135 635 131 HOH HOH . F 6 HOH A 136 636 133 HOH HOH . F 6 HOH A 137 637 135 HOH HOH . F 6 HOH A 138 638 136 HOH HOH . F 6 HOH A 139 639 137 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 8.49 23.262 -13.559 1 26.04 ? PG ANP 401 A 1 HETATM 2 O O1G ANP . . . B 2 7.816 22.709 -14.719 1 25.59 ? O1G ANP 401 A 1 HETATM 3 O O2G ANP . . . B 2 9.929 23.721 -13.925 1 27.52 ? O2G ANP 401 A 1 HETATM 4 O O3G ANP . . . B 2 7.715 24.486 -12.981 1 26.69 ? O3G ANP 401 A 1 HETATM 5 P PB ANP . . . B 2 9.833 21.104 -12.088 1 27.76 ? PB ANP 401 A 1 HETATM 6 O O1B ANP . . . B 2 9.523 20.173 -11.013 1 30.31 ? O1B ANP 401 A 1 HETATM 7 O O2B ANP . . . B 2 11.131 21.913 -11.806 1 27.46 ? O2B ANP 401 A 1 HETATM 8 N N3B ANP . . . B 2 8.602 22.132 -12.381 1 27.99 ? N3B ANP 401 A 1 HETATM 9 P PA ANP . . . B 2 11.259 20.01 -14.368 1 30.35 ? PA ANP 401 A 1 HETATM 10 O O1A ANP . . . B 2 11.932 21.275 -14.622 1 28.31 ? O1A ANP 401 A 1 HETATM 11 O O2A ANP . . . B 2 10.753 19.221 -15.61 1 28.43 ? O2A ANP 401 A 1 HETATM 12 O O3A ANP . . . B 2 9.983 20.35 -13.478 1 30.49 ? O3A ANP 401 A 1 HETATM 13 O O5' ANP . . . B 2 12.159 19.192 -13.335 1 29.69 ? O5' ANP 401 A 1 HETATM 14 C C5' ANP . . . B 2 11.586 17.919 -12.945 1 30.73 ? C5' ANP 401 A 1 HETATM 15 C C4' ANP . . . B 2 12.281 17.429 -11.7 1 31.76 ? C4' ANP 401 A 1 HETATM 16 O O4' ANP . . . B 2 13.649 17.073 -12.016 1 31.63 ? O4' ANP 401 A 1 HETATM 17 C C3' ANP . . . B 2 12.419 18.439 -10.57 1 32.76 ? C3' ANP 401 A 1 HETATM 18 O O3' ANP . . . B 2 11.222 18.627 -9.811 1 30.25 ? O3' ANP 401 A 1 HETATM 19 C C2' ANP . . . B 2 13.568 17.822 -9.761 1 33.54 ? C2' ANP 401 A 1 HETATM 20 O O2' ANP . . . B 2 13.067 16.756 -8.961 1 34.61 ? O2' ANP 401 A 1 HETATM 21 C C1' ANP . . . B 2 14.474 17.278 -10.88 1 31.2 ? C1' ANP 401 A 1 HETATM 22 N N9 ANP . . . B 2 15.597 18.134 -11.273 1 31.88 ? N9 ANP 401 A 1 HETATM 23 C C8 ANP . . . B 2 15.672 18.854 -12.428 1 33.08 ? C8 ANP 401 A 1 HETATM 24 N N7 ANP . . . B 2 16.775 19.558 -12.541 1 33.05 ? N7 ANP 401 A 1 HETATM 25 C C5 ANP . . . B 2 17.48 19.272 -11.375 1 32.19 ? C5 ANP 401 A 1 HETATM 26 C C6 ANP . . . B 2 18.762 19.635 -10.917 1 32.78 ? C6 ANP 401 A 1 HETATM 27 N N6 ANP . . . B 2 19.584 20.458 -11.573 1 32.06 ? N6 ANP 401 A 1 HETATM 28 N N1 ANP . . . B 2 19.194 19.087 -9.763 1 33.63 ? N1 ANP 401 A 1 HETATM 29 C C2 ANP . . . B 2 18.387 18.23 -9.116 1 33.72 ? C2 ANP 401 A 1 HETATM 30 N N3 ANP . . . B 2 17.162 17.823 -9.441 1 32.47 ? N3 ANP 401 A 1 HETATM 31 C C4 ANP . . . B 2 16.76 18.381 -10.59 1 32.63 ? C4 ANP 401 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #