data_5GQL # _model_server_result.job_id 24Pl3jaRaoANmERuSD2GNg _model_server_result.datetime_utc '2025-07-06 06:39:14' _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 5gql # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 5GQL # _exptl.entry_id 5GQL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 5 _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 5GQL _cell.length_a 103.328 _cell.length_b 103.328 _cell.length_c 103.328 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GQL _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 1,2,3,4,5,6,7,8,9,10,11,12 # 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_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 103.328 103.328 0 3 'crystal symmetry operation' 3_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 103.328 0 103.328 4 'crystal symmetry operation' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 103.328 103.328 5 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 6 'crystal symmetry operation' 6_566 z,-x+1,-y+1 0 0 1 -1 0 0 0 -1 0 0 103.328 103.328 7 'crystal symmetry operation' 7_665 -z+1,-x+1,y 0 0 -1 -1 0 0 0 1 0 103.328 103.328 0 8 'crystal symmetry operation' 8_656 -z+1,x,-y+1 0 0 -1 1 0 0 0 -1 0 103.328 0 103.328 9 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 10 'crystal symmetry operation' 10_656 -y+1,z,-x+1 0 -1 0 0 0 1 -1 0 0 103.328 0 103.328 11 'crystal symmetry operation' 11_566 y,-z+1,-x+1 0 1 0 0 0 -1 -1 0 0 0 103.328 103.328 12 'crystal symmetry operation' 12_665 -y+1,-z+1,x 0 -1 0 0 0 -1 1 0 0 103.328 103.328 0 # _struct_asym.details ? _struct_asym.entity_id 5 _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 covale ? covale1 A C ACE 1 A ACE 1 1_555 A N ALA 2 A ALA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? metalc ? metalc1 C MG MG . A MG 302 1_555 F O1A ATP . A ATP 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc2 C MG MG . A MG 302 1_555 F O3G ATP . A ATP 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc3 C MG MG . A MG 302 1_555 F O1B ATP . A ATP 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc4 C MG MG . A MG 302 1_555 H O HOH . A HOH 434 19_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc5 D MG MG . A MG 303 1_555 E O3G CTP . A CTP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc6 D MG MG . A MG 303 1_555 E O2A CTP . A CTP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc7 D MG MG . A MG 303 1_555 E O2B CTP . A CTP 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.247 ? metalc ? metalc8 D MG MG . A MG 303 1_555 H O HOH . A HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? # _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 76 n n PG O2G ATP sing 77 n n PG O3G ATP sing 78 n n PG O3B ATP sing 79 n n O2G HOG2 ATP sing 80 n n O3G HOG3 ATP sing 81 n n PB O1B ATP doub 82 n n PB O2B ATP sing 83 n n PB O3B ATP sing 84 n n PB O3A ATP sing 85 n n O2B HOB2 ATP sing 86 n n PA O1A ATP doub 87 n n PA O2A ATP sing 88 n n PA O3A ATP sing 89 n n PA O5' ATP sing 90 n n O2A HOA2 ATP sing 91 n n O5' C5' ATP sing 92 n n C5' C4' ATP sing 93 n n C5' "H5'1" ATP sing 94 n n C5' "H5'2" ATP sing 95 n n C4' O4' ATP sing 96 n n C4' C3' ATP sing 97 n n C4' H4' ATP sing 98 n n O4' C1' ATP sing 99 n n C3' O3' ATP sing 100 n n C3' C2' ATP sing 101 n n C3' H3' ATP sing 102 n n O3' HO3' ATP sing 103 n n C2' O2' ATP sing 104 n n C2' C1' ATP sing 105 n n C2' H2' ATP sing 106 n n O2' HO2' ATP sing 107 n n C1' N9 ATP sing 108 n n C1' H1' ATP sing 109 n n N9 C8 ATP sing 110 n y N9 C4 ATP sing 111 n y C8 N7 ATP doub 112 n y C8 H8 ATP sing 113 n n N7 C5 ATP sing 114 n y C5 C6 ATP sing 115 n y C5 C4 ATP doub 116 n y C6 N6 ATP sing 117 n n C6 N1 ATP doub 118 n y N6 HN61 ATP sing 119 n n N6 HN62 ATP sing 120 n n N1 C2 ATP sing 121 n y C2 N3 ATP doub 122 n y C2 H2 ATP sing 123 n n N3 C4 ATP sing 124 n y # _atom_sites.entry_id 5GQL _atom_sites.fract_transf_matrix[1][1] 0.009678 _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] 0.009678 _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] 0.009678 _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 CL A 1 301 301 CL CL . C 3 MG A 1 302 302 MG MG . D 3 MG A 1 303 303 MG MG . E 4 CTP A 1 304 304 CTP CTP . F 5 ATP A 1 305 305 ATP ATP . G 6 EDO A 1 306 306 EDO EDO . H 7 HOH A 1 401 401 HOH HOH . H 7 HOH A 2 402 402 HOH HOH . H 7 HOH A 3 403 404 HOH HOH . H 7 HOH A 4 404 403 HOH HOH . H 7 HOH A 5 405 405 HOH HOH . H 7 HOH A 6 406 406 HOH HOH . H 7 HOH A 7 407 408 HOH HOH . H 7 HOH A 8 408 407 HOH HOH . H 7 HOH A 9 409 409 HOH HOH . H 7 HOH A 10 410 410 HOH HOH . H 7 HOH A 11 411 411 HOH HOH . H 7 HOH A 12 412 415 HOH HOH . H 7 HOH A 13 413 413 HOH HOH . H 7 HOH A 14 414 414 HOH HOH . H 7 HOH A 15 415 412 HOH HOH . H 7 HOH A 16 416 416 HOH HOH . H 7 HOH A 17 417 417 HOH HOH . H 7 HOH A 18 418 420 HOH HOH . H 7 HOH A 19 419 418 HOH HOH . H 7 HOH A 20 420 422 HOH HOH . H 7 HOH A 21 421 419 HOH HOH . H 7 HOH A 22 422 421 HOH HOH . H 7 HOH A 23 423 424 HOH HOH . H 7 HOH A 24 424 428 HOH HOH . H 7 HOH A 25 425 423 HOH HOH . H 7 HOH A 26 426 426 HOH HOH . H 7 HOH A 27 427 425 HOH HOH . H 7 HOH A 28 428 430 HOH HOH . H 7 HOH A 29 429 431 HOH HOH . H 7 HOH A 30 430 427 HOH HOH . H 7 HOH A 31 431 429 HOH HOH . H 7 HOH A 32 432 432 HOH HOH . H 7 HOH A 33 433 435 HOH HOH . H 7 HOH A 34 434 434 HOH HOH . H 7 HOH A 35 435 433 HOH HOH . H 7 HOH A 36 436 437 HOH HOH . H 7 HOH A 37 437 436 HOH HOH . H 7 HOH A 38 438 440 HOH HOH . H 7 HOH A 39 439 441 HOH HOH . H 7 HOH A 40 440 445 HOH HOH . H 7 HOH A 41 441 442 HOH HOH . H 7 HOH A 42 442 443 HOH HOH . H 7 HOH A 43 443 438 HOH HOH . H 7 HOH A 44 444 439 HOH HOH . H 7 HOH A 45 445 448 HOH HOH . H 7 HOH A 46 446 452 HOH HOH . H 7 HOH A 47 447 444 HOH HOH . H 7 HOH A 48 448 447 HOH HOH . H 7 HOH A 49 449 446 HOH HOH . H 7 HOH A 50 450 450 HOH HOH . H 7 HOH A 51 451 449 HOH HOH . H 7 HOH A 52 452 451 HOH HOH . H 7 HOH A 53 453 454 HOH HOH . H 7 HOH A 54 454 459 HOH HOH . H 7 HOH A 55 455 453 HOH HOH . H 7 HOH A 56 456 455 HOH HOH . H 7 HOH A 57 457 456 HOH HOH . H 7 HOH A 58 458 457 HOH HOH . H 7 HOH A 59 459 458 HOH HOH . H 7 HOH A 60 460 467 HOH HOH . H 7 HOH A 61 461 466 HOH HOH . H 7 HOH A 62 462 461 HOH HOH . H 7 HOH A 63 463 465 HOH HOH . H 7 HOH A 64 464 460 HOH HOH . H 7 HOH A 65 465 462 HOH HOH . H 7 HOH A 66 466 464 HOH HOH . H 7 HOH A 67 467 463 HOH HOH . H 7 HOH A 68 468 469 HOH HOH . H 7 HOH A 69 469 468 HOH HOH . H 7 HOH A 70 470 472 HOH HOH . H 7 HOH A 71 471 470 HOH HOH . H 7 HOH A 72 472 471 HOH HOH . H 7 HOH A 73 473 473 HOH HOH . H 7 HOH A 74 474 474 HOH HOH . H 7 HOH A 75 475 476 HOH HOH . H 7 HOH A 76 476 475 HOH HOH . H 7 HOH A 77 477 481 HOH HOH . H 7 HOH A 78 478 479 HOH HOH . H 7 HOH A 79 479 478 HOH HOH . H 7 HOH A 80 480 483 HOH HOH . H 7 HOH A 81 481 477 HOH HOH . H 7 HOH A 82 482 484 HOH HOH . H 7 HOH A 83 483 482 HOH HOH . H 7 HOH A 84 484 485 HOH HOH . H 7 HOH A 85 485 480 HOH HOH . H 7 HOH A 86 486 488 HOH HOH . H 7 HOH A 87 487 487 HOH HOH . H 7 HOH A 88 488 489 HOH HOH . H 7 HOH A 89 489 492 HOH HOH . H 7 HOH A 90 490 486 HOH HOH . H 7 HOH A 91 491 490 HOH HOH . H 7 HOH A 92 492 491 HOH HOH . H 7 HOH A 93 493 493 HOH HOH . H 7 HOH A 94 494 494 HOH HOH . H 7 HOH A 95 495 495 HOH HOH . H 7 HOH A 96 496 496 HOH HOH . H 7 HOH A 97 497 497 HOH HOH . H 7 HOH A 98 498 498 HOH HOH . H 7 HOH A 99 499 501 HOH HOH . H 7 HOH A 100 500 502 HOH HOH . H 7 HOH A 101 501 503 HOH HOH . H 7 HOH A 102 502 500 HOH HOH . H 7 HOH A 103 503 499 HOH HOH . H 7 HOH A 104 504 505 HOH HOH . H 7 HOH A 105 505 506 HOH HOH . H 7 HOH A 106 506 504 HOH HOH . H 7 HOH A 107 507 520 HOH HOH . H 7 HOH A 108 508 507 HOH HOH . H 7 HOH A 109 509 510 HOH HOH . H 7 HOH A 110 510 509 HOH HOH . H 7 HOH A 111 511 522 HOH HOH . H 7 HOH A 112 512 511 HOH HOH . H 7 HOH A 113 513 508 HOH HOH . H 7 HOH A 114 514 512 HOH HOH . H 7 HOH A 115 515 513 HOH HOH . H 7 HOH A 116 516 516 HOH HOH . H 7 HOH A 117 517 515 HOH HOH . H 7 HOH A 118 518 514 HOH HOH . H 7 HOH A 119 519 517 HOH HOH . H 7 HOH A 120 520 518 HOH HOH . H 7 HOH A 121 521 519 HOH HOH . H 7 HOH A 122 522 521 HOH HOH . H 7 HOH A 123 523 523 HOH HOH . H 7 HOH A 124 524 524 HOH HOH . H 7 HOH A 125 525 526 HOH HOH . H 7 HOH A 126 526 525 HOH HOH . H 7 HOH A 127 527 527 HOH HOH . H 7 HOH A 128 528 528 HOH HOH . H 7 HOH A 129 529 529 HOH HOH . H 7 HOH A 130 530 530 HOH HOH . H 7 HOH A 131 531 531 HOH HOH . H 7 HOH A 132 532 532 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 5 46.007 26.719 -2.288 1 25.12 ? PG ATP 305 A 1 HETATM 2 O O1G ATP . . . F 5 46.314 27.763 -3.368 1 25.26 ? O1G ATP 305 A 1 HETATM 3 O O2G ATP . . . F 5 46.027 27.194 -0.855 1 25.83 ? O2G ATP 305 A 1 HETATM 4 O O3G ATP . . . F 5 44.833 25.827 -2.616 1 25.73 ? O3G ATP 305 A 1 HETATM 5 P PB ATP . . . F 5 47.47 24.344 -2.952 1 24.21 ? PB ATP 305 A 1 HETATM 6 O O1B ATP . . . F 5 46.364 24.12 -3.978 1 23.14 ? O1B ATP 305 A 1 HETATM 7 O O2B ATP . . . F 5 48.937 24.199 -3.357 1 20.84 ? O2B ATP 305 A 1 HETATM 8 O O3B ATP . . . F 5 47.349 25.82 -2.29 1 24.31 ? O3B ATP 305 A 1 HETATM 9 P PA ATP . . . F 5 45.883 22.814 -1.044 1 25.44 ? PA ATP 305 A 1 HETATM 10 O O1A ATP . . . F 5 44.845 22.796 -2.137 1 26.43 ? O1A ATP 305 A 1 HETATM 11 O O2A ATP . . . F 5 45.618 23.459 0.309 1 28.22 ? O2A ATP 305 A 1 HETATM 12 O O3A ATP . . . F 5 47.254 23.457 -1.598 1 24.8 ? O3A ATP 305 A 1 HETATM 13 O O5' ATP . . . F 5 46.27 21.276 -0.711 1 27.38 ? O5' ATP 305 A 1 HETATM 14 C C5' ATP . . . F 5 47.346 20.906 0.173 1 31.56 ? C5' ATP 305 A 1 HETATM 15 C C4' ATP . . . F 5 47.098 19.489 0.706 1 36.74 ? C4' ATP 305 A 1 HETATM 16 O O4' ATP . . . F 5 45.979 19.48 1.608 1 39.61 ? O4' ATP 305 A 1 HETATM 17 C C3' ATP . . . F 5 46.745 18.483 -0.386 1 38.19 ? C3' ATP 305 A 1 HETATM 18 O O3' ATP . . . F 5 47.273 17.211 -0.012 1 36.84 ? O3' ATP 305 A 1 HETATM 19 C C2' ATP . . . F 5 45.225 18.4 -0.382 1 40.38 ? C2' ATP 305 A 1 HETATM 20 O O2' ATP . . . F 5 44.731 17.143 -0.869 1 40.55 ? O2' ATP 305 A 1 HETATM 21 C C1' ATP . . . F 5 44.885 18.701 1.082 1 41.77 ? C1' ATP 305 A 1 HETATM 22 N N9 ATP . . . F 5 43.584 19.402 1.325 1 45.5 ? N9 ATP 305 A 1 HETATM 23 C C8 ATP . . . F 5 42.821 20.116 0.457 1 45.15 ? C8 ATP 305 A 1 HETATM 24 N N7 ATP . . . F 5 41.704 20.611 1.06 1 43.72 ? N7 ATP 305 A 1 HETATM 25 C C5 ATP . . . F 5 41.735 20.214 2.348 1 47.3 ? C5 ATP 305 A 1 HETATM 26 C C6 ATP . . . F 5 40.872 20.367 3.559 1 49.08 ? C6 ATP 305 A 1 HETATM 27 N N6 ATP . . . F 5 39.711 21.068 3.51 1 48.94 ? N6 ATP 305 A 1 HETATM 28 N N1 ATP . . . F 5 41.286 19.788 4.725 1 50.27 ? N1 ATP 305 A 1 HETATM 29 C C2 ATP . . . F 5 42.44 19.078 4.819 1 48.82 ? C2 ATP 305 A 1 HETATM 30 N N3 ATP . . . F 5 43.267 18.892 3.76 1 50.47 ? N3 ATP 305 A 1 HETATM 31 C C4 ATP . . . F 5 42.977 19.419 2.522 1 47.84 ? C4 ATP 305 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 31 #