data_3RTC # _model_server_result.job_id 3vIxboBS9X-NFBTEStDL6g _model_server_result.datetime_utc '2024-10-19 03:41:56' _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 3rtc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":494}' # _entry.id 3RTC # _exptl.entry_id 3RTC _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 3RTC _cell.length_a 122.399 _cell.length_b 122.399 _cell.length_c 155.122 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RTC _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 _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? metalc ? metalc2 A O ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.937 ? metalc ? metalc3 A OD2 ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.324 ? metalc ? metalc4 A O PHE 129 A PHE 117 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc5 A O VAL 158 A VAL 146 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc6 A O VAL 160 A VAL 148 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.793 ? metalc ? metalc7 A OG SER 162 A SER 150 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.911 ? metalc ? metalc8 D MG MG . A MG 492 1_555 F O1A ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc9 D MG MG . A MG 492 1_555 F O1B ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc10 D MG MG . A MG 492 1_555 F O2G ATP . A ATP 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? metalc ? metalc11 D MG MG . A MG 492 1_555 H O HOH . A HOH 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc12 D MG MG . A MG 492 1_555 H O HOH . A HOH 553 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc13 D MG MG . A MG 492 1_555 H O HOH . A HOH 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? # _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 3RTC _atom_sites.fract_transf_matrix[1][1] 0.00817 _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] 0.00817 _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] 0.006447 _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 NAD A 1 493 3 NAD NAD . F 6 ATP A 1 494 4 ATP ATP . G 5 NAD A 1 495 5 NAD NAD . 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 111 606 111 HOH HOH . H 7 HOH A 112 607 112 HOH HOH . H 7 HOH A 113 608 113 HOH HOH . H 7 HOH A 114 609 114 HOH HOH . H 7 HOH A 115 610 115 HOH HOH . H 7 HOH A 116 611 116 HOH HOH . H 7 HOH A 117 612 117 HOH HOH . H 7 HOH A 118 613 118 HOH HOH . H 7 HOH A 119 614 119 HOH HOH . H 7 HOH A 120 615 120 HOH HOH . H 7 HOH A 121 616 121 HOH HOH . H 7 HOH A 122 617 122 HOH HOH . H 7 HOH A 123 618 123 HOH HOH . H 7 HOH A 124 619 124 HOH HOH . H 7 HOH A 125 620 125 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 -19.842 4.091 -42.205 1 96.27 ? PG ATP 494 A 1 HETATM 2 O O1G ATP . . . F 6 -18.837 5.07 -42.823 1 97.61 ? O1G ATP 494 A 1 HETATM 3 O O2G ATP . . . F 6 -20.946 3.786 -43.225 1 97.4 ? O2G ATP 494 A 1 HETATM 4 O O3G ATP . . . F 6 -19.238 2.884 -41.54 1 95.03 ? O3G ATP 494 A 1 HETATM 5 P PB ATP . . . F 6 -21.492 5.977 -41.248 1 76.7 ? PB ATP 494 A 1 HETATM 6 O O1B ATP . . . F 6 -22.134 5.601 -42.57 1 80.78 ? O1B ATP 494 A 1 HETATM 7 O O2B ATP . . . F 6 -20.726 7.259 -41.238 1 80.4 ? O2B ATP 494 A 1 HETATM 8 O O3B ATP . . . F 6 -20.49 4.823 -40.881 1 84.25 ? O3B ATP 494 A 1 HETATM 9 P PA ATP . . . F 6 -23.931 4.937 -40.129 1 61.82 ? PA ATP 494 A 1 HETATM 10 O O1A ATP . . . F 6 -24.099 3.894 -41.195 1 64.07 ? O1A ATP 494 A 1 HETATM 11 O O2A ATP . . . F 6 -25.062 5.827 -39.658 1 70.41 ? O2A ATP 494 A 1 HETATM 12 O O3A ATP . . . F 6 -22.722 6.022 -40.214 1 73.37 ? O3A ATP 494 A 1 HETATM 13 O O5' ATP . . . F 6 -23.533 4.099 -38.812 1 60.37 ? O5' ATP 494 A 1 HETATM 14 C C5' ATP . . . F 6 -23.251 4.82 -37.599 1 56.8 ? C5' ATP 494 A 1 HETATM 15 C C4' ATP . . . F 6 -23.218 3.832 -36.416 1 55.75 ? C4' ATP 494 A 1 HETATM 16 O O4' ATP . . . F 6 -22.852 4.546 -35.243 1 54.84 ? O4' ATP 494 A 1 HETATM 17 C C3' ATP . . . F 6 -24.62 3.301 -36.083 1 56.34 ? C3' ATP 494 A 1 HETATM 18 O O3' ATP . . . F 6 -24.589 2.088 -35.363 1 53.64 ? O3' ATP 494 A 1 HETATM 19 C C2' ATP . . . F 6 -25.234 4.306 -35.152 1 58.18 ? C2' ATP 494 A 1 HETATM 20 O O2' ATP . . . F 6 -26.283 3.726 -34.366 1 58.02 ? O2' ATP 494 A 1 HETATM 21 C C1' ATP . . . F 6 -23.986 4.674 -34.352 1 57.96 ? C1' ATP 494 A 1 HETATM 22 N N9 ATP . . . F 6 -24.086 6.029 -33.754 1 58.37 ? N9 ATP 494 A 1 HETATM 23 C C8 ATP . . . F 6 -23.899 7.197 -34.411 1 58.87 ? C8 ATP 494 A 1 HETATM 24 N N7 ATP . . . F 6 -24.025 8.25 -33.571 1 56.18 ? N7 ATP 494 A 1 HETATM 25 C C5 ATP . . . F 6 -24.292 7.736 -32.359 1 57.14 ? C5 ATP 494 A 1 HETATM 26 C C6 ATP . . . F 6 -24.548 8.32 -31.047 1 55.2 ? C6 ATP 494 A 1 HETATM 27 N N6 ATP . . . F 6 -24.53 9.684 -30.946 1 56.5 ? N6 ATP 494 A 1 HETATM 28 N N1 ATP . . . F 6 -24.784 7.465 -30.016 1 56.43 ? N1 ATP 494 A 1 HETATM 29 C C2 ATP . . . F 6 -24.813 6.107 -30.146 1 55.54 ? C2 ATP 494 A 1 HETATM 30 N N3 ATP . . . F 6 -24.615 5.5 -31.351 1 57.33 ? N3 ATP 494 A 1 HETATM 31 C C4 ATP . . . F 6 -24.336 6.262 -32.464 1 58.23 ? C4 ATP 494 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 367 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #