data_3RTE # _model_server_result.job_id hYj7kikSunwJoDB6ezD8Wg _model_server_result.datetime_utc '2024-11-22 09:47:37' _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 3rte # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":494}' # _entry.id 3RTE # _exptl.entry_id 3RTE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 3RTE _cell.length_a 122.441 _cell.length_b 122.441 _cell.length_c 155.05 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RTE _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 5 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 7 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 6 _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 OD1 ASN 64 A ASN 52 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.793 ? metalc ? metalc2 A O ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.963 ? metalc ? metalc3 A OD2 ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.36 ? metalc ? metalc4 A O PHE 129 A PHE 117 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.721 ? metalc ? metalc5 A O VAL 158 A VAL 146 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc6 A O VAL 160 A VAL 148 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc7 A OG SER 162 A SER 150 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.988 ? metalc ? metalc8 D MG MG . A MG 492 1_555 F O1A ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc9 D MG MG . A MG 492 1_555 F O3B ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc10 D MG MG . A MG 492 1_555 F O2G ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc11 D MG MG . A MG 492 1_555 H O HOH . A HOH 552 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc12 D MG MG . A MG 492 1_555 H O HOH . A HOH 553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc13 D MG MG . A MG 492 1_555 H O HOH . A HOH 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 3RTE _atom_sites.fract_transf_matrix[1][1] 0.008167 _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] 0.008167 _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] 0.00645 _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 K A 1 491 1 K K . D 4 MG A 1 492 2 MG MG . E 5 NAP A 1 493 3 NAP NAP . F 6 ATP A 1 494 4 ATP ATP . G 5 NAP A 1 495 5 NAP NAP . H 7 HOH A 1 496 1 HOH HOH . H 7 HOH A 2 497 2 HOH HOH . H 7 HOH A 3 498 3 HOH HOH . H 7 HOH A 4 499 4 HOH HOH . H 7 HOH A 5 500 5 HOH HOH . H 7 HOH A 6 501 6 HOH HOH . H 7 HOH A 7 502 7 HOH HOH . H 7 HOH A 8 503 8 HOH HOH . H 7 HOH A 9 504 9 HOH HOH . H 7 HOH A 10 505 10 HOH HOH . H 7 HOH A 11 506 11 HOH HOH . H 7 HOH A 12 507 12 HOH HOH . H 7 HOH A 13 508 13 HOH HOH . H 7 HOH A 14 509 14 HOH HOH . H 7 HOH A 15 510 15 HOH HOH . H 7 HOH A 16 511 16 HOH HOH . H 7 HOH A 17 512 17 HOH HOH . H 7 HOH A 18 513 18 HOH HOH . H 7 HOH A 19 514 19 HOH HOH . H 7 HOH A 20 515 20 HOH HOH . H 7 HOH A 21 516 21 HOH HOH . H 7 HOH A 22 517 22 HOH HOH . H 7 HOH A 23 518 23 HOH HOH . H 7 HOH A 24 519 24 HOH HOH . H 7 HOH A 25 520 25 HOH HOH . H 7 HOH A 26 521 26 HOH HOH . H 7 HOH A 27 522 27 HOH HOH . H 7 HOH A 28 523 28 HOH HOH . H 7 HOH A 29 524 29 HOH HOH . H 7 HOH A 30 525 30 HOH HOH . H 7 HOH A 31 526 31 HOH HOH . H 7 HOH A 32 527 32 HOH HOH . H 7 HOH A 33 528 33 HOH HOH . H 7 HOH A 34 529 34 HOH HOH . H 7 HOH A 35 530 35 HOH HOH . H 7 HOH A 36 531 36 HOH HOH . H 7 HOH A 37 532 37 HOH HOH . H 7 HOH A 38 533 38 HOH HOH . H 7 HOH A 39 534 39 HOH HOH . H 7 HOH A 40 535 40 HOH HOH . H 7 HOH A 41 536 41 HOH HOH . H 7 HOH A 42 537 42 HOH HOH . H 7 HOH A 43 538 43 HOH HOH . H 7 HOH A 44 539 44 HOH HOH . H 7 HOH A 45 540 45 HOH HOH . H 7 HOH A 46 541 46 HOH HOH . H 7 HOH A 47 542 47 HOH HOH . H 7 HOH A 48 543 48 HOH HOH . H 7 HOH A 49 544 49 HOH HOH . H 7 HOH A 50 545 50 HOH HOH . H 7 HOH A 51 546 51 HOH HOH . H 7 HOH A 52 547 52 HOH HOH . H 7 HOH A 53 548 53 HOH HOH . H 7 HOH A 54 549 54 HOH HOH . H 7 HOH A 55 550 55 HOH HOH . H 7 HOH A 56 551 56 HOH HOH . H 7 HOH A 57 552 57 HOH HOH . H 7 HOH A 58 553 58 HOH HOH . H 7 HOH A 59 554 59 HOH HOH . H 7 HOH A 60 555 60 HOH HOH . H 7 HOH A 61 556 61 HOH HOH . H 7 HOH A 62 557 62 HOH HOH . H 7 HOH A 63 558 63 HOH HOH . H 7 HOH A 64 559 64 HOH HOH . H 7 HOH A 65 560 65 HOH HOH . H 7 HOH A 66 561 66 HOH HOH . H 7 HOH A 67 562 67 HOH HOH . H 7 HOH A 68 563 68 HOH HOH . H 7 HOH A 69 564 69 HOH HOH . H 7 HOH A 70 565 70 HOH HOH . H 7 HOH A 71 566 71 HOH HOH . H 7 HOH A 72 567 72 HOH HOH . H 7 HOH A 73 568 73 HOH HOH . H 7 HOH A 74 569 74 HOH HOH . H 7 HOH A 75 570 75 HOH HOH . H 7 HOH A 76 571 76 HOH HOH . H 7 HOH A 77 572 77 HOH HOH . H 7 HOH A 78 573 78 HOH HOH . H 7 HOH A 79 574 79 HOH HOH . H 7 HOH A 80 575 80 HOH HOH . H 7 HOH A 81 576 81 HOH HOH . H 7 HOH A 82 577 82 HOH HOH . H 7 HOH A 83 578 83 HOH HOH . H 7 HOH A 84 579 84 HOH HOH . H 7 HOH A 85 580 85 HOH HOH . H 7 HOH A 86 581 86 HOH HOH . H 7 HOH A 87 582 87 HOH HOH . H 7 HOH A 88 583 88 HOH HOH . H 7 HOH A 89 584 89 HOH HOH . H 7 HOH A 90 585 90 HOH HOH . H 7 HOH A 91 586 91 HOH HOH . H 7 HOH A 92 587 92 HOH HOH . H 7 HOH A 93 588 93 HOH HOH . H 7 HOH A 94 589 94 HOH HOH . H 7 HOH A 95 590 95 HOH HOH . H 7 HOH A 96 591 96 HOH HOH . H 7 HOH A 97 592 97 HOH HOH . H 7 HOH A 98 593 98 HOH HOH . H 7 HOH A 99 594 99 HOH HOH . H 7 HOH A 100 595 100 HOH HOH . H 7 HOH A 101 596 101 HOH HOH . H 7 HOH A 102 597 102 HOH HOH . H 7 HOH A 103 598 103 HOH HOH . H 7 HOH A 104 599 104 HOH HOH . H 7 HOH A 105 600 105 HOH HOH . H 7 HOH A 106 601 106 HOH HOH . H 7 HOH A 107 602 107 HOH HOH . H 7 HOH A 108 603 108 HOH HOH . H 7 HOH A 109 604 109 HOH HOH . H 7 HOH A 110 605 110 HOH HOH . H 7 HOH A 111 606 112 HOH HOH . H 7 HOH A 112 607 113 HOH HOH . H 7 HOH A 113 608 114 HOH HOH . H 7 HOH A 114 609 115 HOH HOH . H 7 HOH A 115 610 116 HOH HOH . H 7 HOH A 116 611 117 HOH HOH . H 7 HOH A 117 612 118 HOH HOH . H 7 HOH A 118 613 119 HOH HOH . H 7 HOH A 119 614 120 HOH HOH . H 7 HOH A 120 615 121 HOH HOH . H 7 HOH A 121 616 122 HOH HOH . H 7 HOH A 122 617 123 HOH HOH . H 7 HOH A 123 618 124 HOH HOH . H 7 HOH A 124 619 125 HOH HOH . H 7 HOH A 125 620 126 HOH HOH . H 7 HOH A 126 621 127 HOH HOH . H 7 HOH A 127 622 128 HOH HOH . H 7 HOH A 128 623 129 HOH HOH . H 7 HOH A 129 624 130 HOH HOH . H 7 HOH A 130 625 131 HOH HOH . H 7 HOH A 131 626 132 HOH HOH . H 7 HOH A 132 627 133 HOH HOH . H 7 HOH A 133 628 134 HOH HOH . H 7 HOH A 134 629 135 HOH HOH . H 7 HOH A 135 630 136 HOH HOH . H 7 HOH A 136 631 137 HOH HOH . H 7 HOH A 137 632 138 HOH HOH . H 7 HOH A 138 633 139 HOH HOH . H 7 HOH A 139 634 140 HOH HOH . H 7 HOH A 140 635 141 HOH HOH . H 7 HOH A 141 636 142 HOH HOH . I 7 HOH B 1 111 111 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 ATP . . . F 6 19.988 4.392 42.698 1 85.89 ? PG ATP 494 A 1 HETATM 2 O O1G ATP . . . F 6 19.108 5.638 42.929 1 86.99 ? O1G ATP 494 A 1 HETATM 3 O O2G ATP . . . F 6 20.484 3.747 43.992 1 86.53 ? O2G ATP 494 A 1 HETATM 4 O O3G ATP . . . F 6 19.463 3.405 41.664 1 80.03 ? O3G ATP 494 A 1 HETATM 5 P PB ATP . . . F 6 21.204 6.037 40.814 1 70.11 ? PB ATP 494 A 1 HETATM 6 O O1B ATP . . . F 6 20.699 7.319 41.419 1 71.95 ? O1B ATP 494 A 1 HETATM 7 O O2B ATP . . . F 6 20.395 5.316 39.782 1 67.43 ? O2B ATP 494 A 1 HETATM 8 O O3B ATP . . . F 6 21.343 5.021 42.05 1 77.81 ? O3B ATP 494 A 1 HETATM 9 P PA ATP . . . F 6 23.818 5.092 39.934 1 60.02 ? PA ATP 494 A 1 HETATM 10 O O1A ATP . . . F 6 23.967 4.051 40.994 1 57.15 ? O1A ATP 494 A 1 HETATM 11 O O2A ATP . . . F 6 24.912 6.07 39.491 1 66.15 ? O2A ATP 494 A 1 HETATM 12 O O3A ATP . . . F 6 22.721 6.262 40.273 1 65.73 ? O3A ATP 494 A 1 HETATM 13 O O5' ATP . . . F 6 23.426 4.172 38.64 1 56.02 ? O5' ATP 494 A 1 HETATM 14 C C5' ATP . . . F 6 23.101 4.766 37.371 1 54.11 ? C5' ATP 494 A 1 HETATM 15 C C4' ATP . . . F 6 23.16 3.772 36.204 1 53.52 ? C4' ATP 494 A 1 HETATM 16 O O4' ATP . . . F 6 22.79 4.523 35.058 1 54.68 ? O4' ATP 494 A 1 HETATM 17 C C3' ATP . . . F 6 24.585 3.306 35.855 1 55.42 ? C3' ATP 494 A 1 HETATM 18 O O3' ATP . . . F 6 24.678 2.124 35.095 1 51.56 ? O3' ATP 494 A 1 HETATM 19 C C2' ATP . . . F 6 25.162 4.311 34.908 1 56.8 ? C2' ATP 494 A 1 HETATM 20 O O2' ATP . . . F 6 26.143 3.693 34.092 1 59.25 ? O2' ATP 494 A 1 HETATM 21 C C1' ATP . . . F 6 23.916 4.696 34.144 1 57.8 ? C1' ATP 494 A 1 HETATM 22 N N9 ATP . . . F 6 24.044 6.073 33.584 1 58.14 ? N9 ATP 494 A 1 HETATM 23 C C8 ATP . . . F 6 23.907 7.25 34.232 1 58.79 ? C8 ATP 494 A 1 HETATM 24 N N7 ATP . . . F 6 24.07 8.303 33.382 1 59.2 ? N7 ATP 494 A 1 HETATM 25 C C5 ATP . . . F 6 24.293 7.794 32.164 1 60.14 ? C5 ATP 494 A 1 HETATM 26 C C6 ATP . . . F 6 24.546 8.331 30.819 1 59.29 ? C6 ATP 494 A 1 HETATM 27 N N6 ATP . . . F 6 24.59 9.674 30.621 1 61.07 ? N6 ATP 494 A 1 HETATM 28 N N1 ATP . . . F 6 24.739 7.433 29.817 1 59.2 ? N1 ATP 494 A 1 HETATM 29 C C2 ATP . . . F 6 24.715 6.085 29.982 1 59.2 ? C2 ATP 494 A 1 HETATM 30 N N3 ATP . . . F 6 24.496 5.52 31.189 1 59.68 ? N3 ATP 494 A 1 HETATM 31 C C4 ATP . . . F 6 24.289 6.311 32.293 1 60.71 ? C4 ATP 494 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #