data_3TU5 # _model_server_result.job_id oi1k-TdK-eyV5tkHa3xWew _model_server_result.datetime_utc '2025-07-14 15:12:20' _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 3tu5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":377}' # _entry.id 3TU5 # _exptl.entry_id 3TU5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 4 _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 3TU5 _cell.length_a 71.184 _cell.length_b 71.184 _cell.length_c 222.244 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TU5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _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 C CA CA . A CA 376 1_555 D O3G ATP . A ATP 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc2 C CA CA . A CA 376 1_555 D O2B ATP . A ATP 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc3 C CA CA . A CA 376 1_555 H O HOH . A HOH 397 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc4 C CA CA . A CA 376 1_555 H O HOH . A HOH 398 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? metalc ? metalc5 B O GLY 59 B GLY 41 1_555 G CA CA . B CA 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? metalc ? metalc6 B OD2 ASP 60 B ASP 42 1_555 G CA CA . B CA 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc7 B OE1 GLU 91 B GLU 73 1_555 G CA CA . B CA 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.485 ? metalc ? metalc8 B OE2 GLU 91 B GLU 73 1_555 G CA CA . B CA 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? metalc ? metalc9 B O VAL 139 B VAL 121 1_555 G CA CA . B CA 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? # _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 3TU5 _atom_sites.fract_transf_matrix[1][1] 0.014048 _atom_sites.fract_transf_matrix[1][2] 0.008111 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016221 _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] 0.0045 _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 CA A 1 376 376 CA CA . D 4 ATP A 1 377 377 ATP ATP . E 5 MPD A 1 378 327 MPD MPD . F 5 MPD A 1 379 328 MPD MPD . G 3 CA B 1 326 326 CA CA . H 6 HOH A 1 380 380 HOH HOH . H 6 HOH A 2 381 381 HOH HOH . H 6 HOH A 3 382 382 HOH HOH . H 6 HOH A 4 383 383 HOH HOH . H 6 HOH A 5 384 384 HOH HOH . H 6 HOH A 6 385 385 HOH HOH . H 6 HOH A 7 386 329 HOH HOH . H 6 HOH A 8 387 387 HOH HOH . H 6 HOH A 9 388 330 HOH HOH . H 6 HOH A 10 389 331 HOH HOH . H 6 HOH A 11 390 332 HOH HOH . H 6 HOH A 12 391 333 HOH HOH . H 6 HOH A 13 392 336 HOH HOH . H 6 HOH A 14 393 337 HOH HOH . H 6 HOH A 15 394 338 HOH HOH . H 6 HOH A 16 395 339 HOH HOH . H 6 HOH A 17 396 340 HOH HOH . H 6 HOH A 18 397 341 HOH HOH . H 6 HOH A 19 398 342 HOH HOH . H 6 HOH A 20 399 343 HOH HOH . H 6 HOH A 21 400 344 HOH HOH . H 6 HOH A 22 401 345 HOH HOH . H 6 HOH A 23 402 346 HOH HOH . H 6 HOH A 24 403 347 HOH HOH . H 6 HOH A 25 404 348 HOH HOH . H 6 HOH A 26 405 349 HOH HOH . H 6 HOH A 27 406 350 HOH HOH . H 6 HOH A 28 407 351 HOH HOH . H 6 HOH A 29 408 368 HOH HOH . H 6 HOH A 30 409 369 HOH HOH . H 6 HOH A 31 410 370 HOH HOH . H 6 HOH A 32 411 371 HOH HOH . H 6 HOH A 33 412 372 HOH HOH . H 6 HOH A 34 413 373 HOH HOH . H 6 HOH A 35 414 374 HOH HOH . H 6 HOH A 36 415 375 HOH HOH . H 6 HOH A 37 416 376 HOH HOH . H 6 HOH A 38 417 377 HOH HOH . H 6 HOH A 39 418 378 HOH HOH . H 6 HOH A 40 419 379 HOH HOH . I 6 HOH B 1 334 334 HOH HOH . I 6 HOH B 2 335 335 HOH HOH . I 6 HOH B 3 352 352 HOH HOH . I 6 HOH B 4 353 353 HOH HOH . I 6 HOH B 5 354 354 HOH HOH . I 6 HOH B 6 355 355 HOH HOH . I 6 HOH B 7 356 356 HOH HOH . I 6 HOH B 8 357 357 HOH HOH . I 6 HOH B 9 358 358 HOH HOH . I 6 HOH B 10 359 359 HOH HOH . I 6 HOH B 11 360 360 HOH HOH . I 6 HOH B 12 361 361 HOH HOH . I 6 HOH B 13 362 362 HOH HOH . I 6 HOH B 14 363 363 HOH HOH . I 6 HOH B 15 364 364 HOH HOH . I 6 HOH B 16 365 365 HOH HOH . I 6 HOH B 17 366 366 HOH HOH . I 6 HOH B 18 367 367 HOH HOH . I 6 HOH B 19 386 386 HOH HOH . I 6 HOH B 20 388 388 HOH HOH . I 6 HOH B 21 389 389 HOH HOH . I 6 HOH B 22 390 390 HOH HOH . I 6 HOH B 23 391 391 HOH HOH . I 6 HOH B 24 392 392 HOH HOH . I 6 HOH B 25 393 393 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 4 16.783 -6.222 23.627 1 51.24 ? PG ATP 377 A 1 HETATM 2 O O1G ATP . . . D 4 17.922 -5.76 24.494 1 48.94 ? O1G ATP 377 A 1 HETATM 3 O O2G ATP . . . D 4 15.786 -5.107 23.396 1 48.52 ? O2G ATP 377 A 1 HETATM 4 O O3G ATP . . . D 4 17.471 -6.952 22.371 1 48.34 ? O3G ATP 377 A 1 HETATM 5 P PB ATP . . . D 4 15.87 -8.887 24.135 1 46.88 ? PB ATP 377 A 1 HETATM 6 O O1B ATP . . . D 4 15.473 -9.407 25.413 1 48.41 ? O1B ATP 377 A 1 HETATM 7 O O2B ATP . . . D 4 17.155 -9.534 23.837 1 46.26 ? O2B ATP 377 A 1 HETATM 8 O O3B ATP . . . D 4 15.888 -7.338 24.337 1 51.23 ? O3B ATP 377 A 1 HETATM 9 P PA ATP . . . D 4 14.146 -10.35 22.367 1 48.78 ? PA ATP 377 A 1 HETATM 10 O O1A ATP . . . D 4 14.655 -11.681 22.925 1 49.33 ? O1A ATP 377 A 1 HETATM 11 O O2A ATP . . . D 4 14.493 -10.223 20.815 1 48.62 ? O2A ATP 377 A 1 HETATM 12 O O3A ATP . . . D 4 14.805 -9.138 23.064 1 47.67 ? O3A ATP 377 A 1 HETATM 13 O O5' ATP . . . D 4 12.563 -10.382 22.552 1 51.08 ? O5' ATP 377 A 1 HETATM 14 C C5' ATP . . . D 4 11.912 -10.755 23.753 1 52.61 ? C5' ATP 377 A 1 HETATM 15 C C4' ATP . . . D 4 10.748 -9.753 23.738 1 54.75 ? C4' ATP 377 A 1 HETATM 16 O O4' ATP . . . D 4 9.903 -9.754 22.572 1 55.49 ? O4' ATP 377 A 1 HETATM 17 C C3' ATP . . . D 4 9.766 -9.647 24.855 1 57.05 ? C3' ATP 377 A 1 HETATM 18 O O3' ATP . . . D 4 9.322 -8.268 25.008 1 59.44 ? O3' ATP 377 A 1 HETATM 19 C C2' ATP . . . D 4 8.684 -10.525 24.282 1 58.76 ? C2' ATP 377 A 1 HETATM 20 O O2' ATP . . . D 4 7.483 -10.236 25.012 1 61.64 ? O2' ATP 377 A 1 HETATM 21 C C1' ATP . . . D 4 8.546 -10.028 22.893 1 56.95 ? C1' ATP 377 A 1 HETATM 22 N N9 ATP . . . D 4 8.043 -11.118 22.15 1 58.37 ? N9 ATP 377 A 1 HETATM 23 C C8 ATP . . . D 4 8.532 -12.434 22.1 1 58 ? C8 ATP 377 A 1 HETATM 24 N N7 ATP . . . D 4 7.829 -13.295 21.368 1 60.15 ? N7 ATP 377 A 1 HETATM 25 C C5 ATP . . . D 4 6.824 -12.445 20.889 1 60.51 ? C5 ATP 377 A 1 HETATM 26 C C6 ATP . . . D 4 5.731 -12.718 20.025 1 63.57 ? C6 ATP 377 A 1 HETATM 27 N N6 ATP . . . D 4 5.6 -14.028 19.573 1 64.67 ? N6 ATP 377 A 1 HETATM 28 N N1 ATP . . . D 4 4.833 -11.681 19.688 1 64.57 ? N1 ATP 377 A 1 HETATM 29 C C2 ATP . . . D 4 5.052 -10.397 20.173 1 63.18 ? C2 ATP 377 A 1 HETATM 30 N N3 ATP . . . D 4 6.081 -10.017 21 1 61.94 ? N3 ATP 377 A 1 HETATM 31 C C4 ATP . . . D 4 6.93 -11.083 21.338 1 60.11 ? C4 ATP 377 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 366 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #