data_4TQF # _model_server_result.job_id uD1XKMMhUGzRNcIjGN6qow _model_server_result.datetime_utc '2025-01-26 22:50:50' _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 4tqf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 4TQF # _exptl.entry_id 4TQF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _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 120 _cell.entry_id 4TQF _cell.length_a 105.11 _cell.length_b 105.11 _cell.length_c 70.29 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4TQF _symmetry.cell_setting ? _symmetry.Int_Tables_number 172 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64' # _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,H,I,J,K,L,M _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' 4_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 52.555 91.02793 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _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 233 A GLU 396 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.913 ? metalc ? metalc2 A OG SER 236 A SER 399 1_555 C MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.652 ? metalc ? metalc3 B MG MG . A MG 501 1_555 D O2G ATP . A ATP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.75 ? metalc ? metalc4 B MG MG . A MG 501 1_555 D O2B ATP . A ATP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.67 ? metalc ? metalc5 B MG MG . A MG 501 1_555 M O HOH . A HOH 652 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.861 ? metalc ? metalc6 B MG MG . A MG 501 1_555 M O HOH . A HOH 653 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc7 B MG MG . A MG 501 1_555 M O HOH . A HOH 654 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.886 ? metalc ? metalc8 B MG MG . A MG 501 1_555 M O HOH . A HOH 655 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc9 C MG MG . A MG 502 1_555 D O1A ATP . A ATP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc10 C MG MG . A MG 502 1_555 D O1B ATP . A ATP 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc11 C MG MG . A MG 502 1_555 M O HOH . A HOH 656 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc12 C MG MG . A MG 502 1_555 M O HOH . A HOH 657 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.727 ? # _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 90 n n PG O2G ATP sing 91 n n PG O3G ATP sing 92 n n PG O3B ATP sing 93 n n O2G HOG2 ATP sing 94 n n O3G HOG3 ATP sing 95 n n PB O1B ATP doub 96 n n PB O2B ATP sing 97 n n PB O3B ATP sing 98 n n PB O3A ATP sing 99 n n O2B HOB2 ATP sing 100 n n PA O1A ATP doub 101 n n PA O2A ATP sing 102 n n PA O3A ATP sing 103 n n PA O5' ATP sing 104 n n O2A HOA2 ATP sing 105 n n O5' C5' ATP sing 106 n n C5' C4' ATP sing 107 n n C5' "H5'1" ATP sing 108 n n C5' "H5'2" ATP sing 109 n n C4' O4' ATP sing 110 n n C4' C3' ATP sing 111 n n C4' H4' ATP sing 112 n n O4' C1' ATP sing 113 n n C3' O3' ATP sing 114 n n C3' C2' ATP sing 115 n n C3' H3' ATP sing 116 n n O3' HO3' ATP sing 117 n n C2' O2' ATP sing 118 n n C2' C1' ATP sing 119 n n C2' H2' ATP sing 120 n n O2' HO2' ATP sing 121 n n C1' N9 ATP sing 122 n n C1' H1' ATP sing 123 n n N9 C8 ATP sing 124 n y N9 C4 ATP sing 125 n y C8 N7 ATP doub 126 n y C8 H8 ATP sing 127 n n N7 C5 ATP sing 128 n y C5 C6 ATP sing 129 n y C5 C4 ATP doub 130 n y C6 N6 ATP sing 131 n n C6 N1 ATP doub 132 n y N6 HN61 ATP sing 133 n n N6 HN62 ATP sing 134 n n N1 C2 ATP sing 135 n y C2 N3 ATP doub 136 n y C2 H2 ATP sing 137 n n N3 C4 ATP sing 138 n y # _atom_sites.entry_id 4TQF _atom_sites.fract_transf_matrix[1][1] 0.009514 _atom_sites.fract_transf_matrix[1][2] 0.005493 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010986 _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] 0.014227 _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 ATP A 1 503 503 ATP ATP . E 4 33W A 1 504 504 33W 33W . F 5 EDO A 1 505 505 EDO EDO . G 5 EDO A 1 506 506 EDO EDO . H 5 EDO A 1 507 507 EDO EDO . I 5 EDO A 1 508 508 EDO EDO . J 5 EDO A 1 509 509 EDO EDO . K 5 EDO A 1 510 510 EDO EDO . L 5 EDO A 1 511 511 EDO EDO . M 6 HOH A 1 601 601 HOH HOH . M 6 HOH A 2 602 602 HOH HOH . M 6 HOH A 3 603 604 HOH HOH . M 6 HOH A 4 604 603 HOH HOH . M 6 HOH A 5 605 605 HOH HOH . M 6 HOH A 6 606 607 HOH HOH . M 6 HOH A 7 607 606 HOH HOH . M 6 HOH A 8 608 610 HOH HOH . M 6 HOH A 9 609 608 HOH HOH . M 6 HOH A 10 610 609 HOH HOH . M 6 HOH A 11 611 611 HOH HOH . M 6 HOH A 12 612 612 HOH HOH . M 6 HOH A 13 613 613 HOH HOH . M 6 HOH A 14 614 615 HOH HOH . M 6 HOH A 15 615 616 HOH HOH . M 6 HOH A 16 616 614 HOH HOH . M 6 HOH A 17 617 617 HOH HOH . M 6 HOH A 18 618 618 HOH HOH . M 6 HOH A 19 619 619 HOH HOH . M 6 HOH A 20 620 620 HOH HOH . M 6 HOH A 21 621 622 HOH HOH . M 6 HOH A 22 622 621 HOH HOH . M 6 HOH A 23 623 624 HOH HOH . M 6 HOH A 24 624 623 HOH HOH . M 6 HOH A 25 625 625 HOH HOH . M 6 HOH A 26 626 626 HOH HOH . M 6 HOH A 27 627 627 HOH HOH . M 6 HOH A 28 628 628 HOH HOH . M 6 HOH A 29 629 629 HOH HOH . M 6 HOH A 30 630 630 HOH HOH . M 6 HOH A 31 631 631 HOH HOH . M 6 HOH A 32 632 632 HOH HOH . M 6 HOH A 33 633 633 HOH HOH . M 6 HOH A 34 634 634 HOH HOH . M 6 HOH A 35 635 635 HOH HOH . M 6 HOH A 36 636 636 HOH HOH . M 6 HOH A 37 637 637 HOH HOH . M 6 HOH A 38 638 638 HOH HOH . M 6 HOH A 39 639 639 HOH HOH . M 6 HOH A 40 640 640 HOH HOH . M 6 HOH A 41 641 641 HOH HOH . M 6 HOH A 42 642 642 HOH HOH . M 6 HOH A 43 643 643 HOH HOH . M 6 HOH A 44 644 644 HOH HOH . M 6 HOH A 45 645 645 HOH HOH . M 6 HOH A 46 646 646 HOH HOH . M 6 HOH A 47 647 647 HOH HOH . M 6 HOH A 48 648 648 HOH HOH . M 6 HOH A 49 649 649 HOH HOH . M 6 HOH A 50 650 650 HOH HOH . M 6 HOH A 51 651 651 HOH HOH . M 6 HOH A 52 652 652 HOH HOH . M 6 HOH A 53 653 653 HOH HOH . M 6 HOH A 54 654 654 HOH HOH . M 6 HOH A 55 655 655 HOH HOH . M 6 HOH A 56 656 656 HOH HOH . M 6 HOH A 57 657 657 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 . . . D 3 9.654 34.233 35.592 1 65.57 ? PG ATP 503 A 1 HETATM 2 O O1G ATP . . . D 3 9.974 33.227 34.523 1 57.9 ? O1G ATP 503 A 1 HETATM 3 O O2G ATP . . . D 3 10.63 34.21 36.709 1 68.96 ? O2G ATP 503 A 1 HETATM 4 O O3G ATP . . . D 3 8.212 34.18 36 1 81.72 ? O3G ATP 503 A 1 HETATM 5 P PB ATP . . . D 3 9.18 37.062 35.338 1 62.7 ? PB ATP 503 A 1 HETATM 6 O O1B ATP . . . D 3 7.744 36.689 35.27 1 88.24 ? O1B ATP 503 A 1 HETATM 7 O O2B ATP . . . D 3 9.738 37.649 36.59 1 61.94 ? O2B ATP 503 A 1 HETATM 8 O O3B ATP . . . D 3 9.938 35.694 34.949 1 66.72 ? O3B ATP 503 A 1 HETATM 9 P PA ATP . . . D 3 9.48 39.594 33.904 1 54.2 ? PA ATP 503 A 1 HETATM 10 O O1A ATP . . . D 3 8.373 39.786 32.942 1 71.02 ? O1A ATP 503 A 1 HETATM 11 O O2A ATP . . . D 3 9.53 40.395 35.169 1 59.42 ? O2A ATP 503 A 1 HETATM 12 O O3A ATP . . . D 3 9.632 37.99 34.091 1 79.09 ? O3A ATP 503 A 1 HETATM 13 O O5' ATP . . . D 3 10.722 39.988 32.98 1 65.58 ? O5' ATP 503 A 1 HETATM 14 C C5' ATP . . . D 3 10.476 39.97 31.573 1 59.01 ? C5' ATP 503 A 1 HETATM 15 C C4' ATP . . . D 3 11.265 38.85 30.905 1 61.47 ? C4' ATP 503 A 1 HETATM 16 O O4' ATP . . . D 3 12.587 38.824 31.442 1 66.05 ? O4' ATP 503 A 1 HETATM 17 C C3' ATP . . . D 3 10.708 37.452 31.137 1 58.61 ? C3' ATP 503 A 1 HETATM 18 O O3' ATP . . . D 3 9.774 37.068 30.123 1 60.07 ? O3' ATP 503 A 1 HETATM 19 C C2' ATP . . . D 3 11.942 36.573 31.104 1 59.9 ? C2' ATP 503 A 1 HETATM 20 O O2' ATP . . . D 3 12.21 36.115 29.781 1 53.45 ? O2' ATP 503 A 1 HETATM 21 C C1' ATP . . . D 3 13.085 37.489 31.449 1 50.2 ? C1' ATP 503 A 1 HETATM 22 N N9 ATP . . . D 3 13.58 37.134 32.797 1 66.59 ? N9 ATP 503 A 1 HETATM 23 C C8 ATP . . . D 3 13.06 37.532 33.978 1 59.86 ? C8 ATP 503 A 1 HETATM 24 N N7 ATP . . . D 3 13.777 37.019 35.013 1 62.7 ? N7 ATP 503 A 1 HETATM 25 C C5 ATP . . . D 3 14.77 36.271 34.49 1 53.07 ? C5 ATP 503 A 1 HETATM 26 C C6 ATP . . . D 3 15.887 35.455 35.019 1 50.4 ? C6 ATP 503 A 1 HETATM 27 N N6 ATP . . . D 3 16.089 35.329 36.352 1 52.54 ? N6 ATP 503 A 1 HETATM 28 N N1 ATP . . . D 3 16.695 34.837 34.126 1 57.2 ? N1 ATP 503 A 1 HETATM 29 C C2 ATP . . . D 3 16.507 34.953 32.797 1 53.28 ? C2 ATP 503 A 1 HETATM 30 N N3 ATP . . . D 3 15.518 35.679 32.249 1 51.58 ? N3 ATP 503 A 1 HETATM 31 C C4 ATP . . . D 3 14.634 36.349 33.029 1 60.77 ? C4 ATP 503 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 31 #