data_3TUI # _model_server_result.job_id 6_uRTncHWmeyOUdtyTJzfA _model_server_result.datetime_utc '2025-07-07 23:22:17' _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 3tui # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":2503}' # _entry.id 3TUI # _exptl.entry_id 3TUI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.39 _cell.angle_gamma 90 _cell.entry_id 3TUI _cell.length_a 83.43 _cell.length_b 140.08 _cell.length_c 150.07 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TUI _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,I,J,M,N,O,P 1 1 E,F,G,H,K,L,Q,R,S,T 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 I N N ? 3 J N N ? 3 K N N ? 3 L N N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 3TUI _atom_sites.fract_transf_matrix[1][1] 0.011986 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001342 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007139 _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] 0.006705 _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 I 3 ADP C 1 2500 2500 ADP ADP . J 3 ADP D 1 2501 2501 ADP ADP . K 3 ADP G 1 2503 2503 ADP ADP . L 3 ADP H 1 2502 2502 ADP ADP . M 4 HOH A 1 218 12 HOH HOH . M 4 HOH A 2 219 13 HOH HOH . M 4 HOH A 3 220 19 HOH HOH . M 4 HOH A 4 221 24 HOH HOH . M 4 HOH A 5 222 43 HOH HOH . M 4 HOH A 6 223 61 HOH HOH . M 4 HOH A 7 224 63 HOH HOH . M 4 HOH A 8 225 96 HOH HOH . M 4 HOH A 9 226 145 HOH HOH . M 4 HOH A 10 5001 3 HOH HOH . M 4 HOH A 11 5003 6 HOH HOH . M 4 HOH A 12 5006 9 HOH HOH . M 4 HOH A 13 5007 10 HOH HOH . M 4 HOH A 14 5008 11 HOH HOH . M 4 HOH A 15 5009 12 HOH HOH . M 4 HOH A 16 5010 13 HOH HOH . M 4 HOH A 17 5011 14 HOH HOH . M 4 HOH A 18 5021 43 HOH HOH . M 4 HOH A 19 5035 114 HOH HOH . M 4 HOH A 20 5036 40 HOH HOH . N 4 HOH B 1 218 5 HOH HOH . N 4 HOH B 2 219 23 HOH HOH . N 4 HOH B 3 220 25 HOH HOH . N 4 HOH B 4 221 27 HOH HOH . N 4 HOH B 5 247 247 HOH HOH . N 4 HOH B 6 257 257 HOH HOH . N 4 HOH B 7 258 258 HOH HOH . N 4 HOH B 8 5012 15 HOH HOH . N 4 HOH B 9 5013 16 HOH HOH . N 4 HOH B 10 5014 17 HOH HOH . N 4 HOH B 11 5015 18 HOH HOH . N 4 HOH B 12 5016 19 HOH HOH . N 4 HOH B 13 5017 20 HOH HOH . N 4 HOH B 14 5018 28 HOH HOH . N 4 HOH B 15 5019 39 HOH HOH . N 4 HOH B 16 5023 46 HOH HOH . N 4 HOH B 17 5024 49 HOH HOH . N 4 HOH B 18 5027 63 HOH HOH . N 4 HOH B 19 5032 105 HOH HOH . O 4 HOH C 1 344 7 HOH HOH . O 4 HOH C 2 345 20 HOH HOH . O 4 HOH C 3 346 31 HOH HOH . O 4 HOH C 4 347 38 HOH HOH . O 4 HOH C 5 348 42 HOH HOH . O 4 HOH C 6 349 44 HOH HOH . O 4 HOH C 7 350 57 HOH HOH . O 4 HOH C 8 351 211 HOH HOH . O 4 HOH C 9 352 240 HOH HOH . O 4 HOH C 10 353 244 HOH HOH . O 4 HOH C 11 354 250 HOH HOH . O 4 HOH C 12 355 256 HOH HOH . O 4 HOH C 13 356 25 HOH HOH . O 4 HOH C 14 357 26 HOH HOH . O 4 HOH C 15 358 27 HOH HOH . O 4 HOH C 16 359 51 HOH HOH . O 4 HOH C 17 360 58 HOH HOH . P 4 HOH D 1 344 6 HOH HOH . P 4 HOH D 2 345 37 HOH HOH . P 4 HOH D 3 346 39 HOH HOH . P 4 HOH D 4 347 51 HOH HOH . P 4 HOH D 5 348 58 HOH HOH . P 4 HOH D 6 349 59 HOH HOH . P 4 HOH D 7 350 72 HOH HOH . P 4 HOH D 8 351 89 HOH HOH . P 4 HOH D 9 352 93 HOH HOH . P 4 HOH D 10 353 178 HOH HOH . P 4 HOH D 11 354 239 HOH HOH . P 4 HOH D 12 355 243 HOH HOH . P 4 HOH D 13 356 253 HOH HOH . P 4 HOH D 14 357 254 HOH HOH . P 4 HOH D 15 358 262 HOH HOH . P 4 HOH D 16 359 265 HOH HOH . P 4 HOH D 17 360 30 HOH HOH . P 4 HOH D 18 361 36 HOH HOH . P 4 HOH D 19 362 60 HOH HOH . P 4 HOH D 20 363 61 HOH HOH . Q 4 HOH E 1 218 28 HOH HOH . Q 4 HOH E 2 219 48 HOH HOH . Q 4 HOH E 3 220 128 HOH HOH . Q 4 HOH E 4 221 152 HOH HOH . Q 4 HOH E 5 273 29 HOH HOH . Q 4 HOH E 6 279 52 HOH HOH . Q 4 HOH E 7 283 59 HOH HOH . Q 4 HOH E 8 5002 4 HOH HOH . Q 4 HOH E 9 5004 7 HOH HOH . Q 4 HOH E 10 5005 8 HOH HOH . Q 4 HOH E 11 5031 49 HOH HOH . Q 4 HOH E 12 5034 54 HOH HOH . R 4 HOH F 1 218 35 HOH HOH . R 4 HOH F 2 219 69 HOH HOH . R 4 HOH F 3 260 260 HOH HOH . R 4 HOH F 4 5020 42 HOH HOH . R 4 HOH F 5 5022 45 HOH HOH . R 4 HOH F 6 5025 55 HOH HOH . R 4 HOH F 7 5026 56 HOH HOH . R 4 HOH F 8 5028 50 HOH HOH . R 4 HOH F 9 5029 138 HOH HOH . R 4 HOH F 10 5030 245 HOH HOH . R 4 HOH F 11 5033 261 HOH HOH . S 4 HOH G 1 344 4 HOH HOH . S 4 HOH G 2 345 18 HOH HOH . S 4 HOH G 3 346 32 HOH HOH . S 4 HOH G 4 347 56 HOH HOH . S 4 HOH G 5 348 60 HOH HOH . S 4 HOH G 6 349 64 HOH HOH . S 4 HOH G 7 350 67 HOH HOH . S 4 HOH G 8 351 68 HOH HOH . S 4 HOH G 9 352 70 HOH HOH . S 4 HOH G 10 353 73 HOH HOH . S 4 HOH G 11 354 79 HOH HOH . S 4 HOH G 12 355 101 HOH HOH . S 4 HOH G 13 356 109 HOH HOH . S 4 HOH G 14 357 232 HOH HOH . S 4 HOH G 15 358 241 HOH HOH . S 4 HOH G 16 359 248 HOH HOH . S 4 HOH G 17 360 259 HOH HOH . S 4 HOH G 18 361 267 HOH HOH . S 4 HOH G 19 362 44 HOH HOH . S 4 HOH G 20 363 48 HOH HOH . S 4 HOH G 21 364 57 HOH HOH . S 4 HOH G 22 365 50 HOH HOH . S 4 HOH G 23 366 62 HOH HOH . T 4 HOH H 1 344 1 HOH HOH . T 4 HOH H 2 345 2 HOH HOH . T 4 HOH H 3 346 3 HOH HOH . T 4 HOH H 4 347 8 HOH HOH . T 4 HOH H 5 348 16 HOH HOH . T 4 HOH H 6 349 17 HOH HOH . T 4 HOH H 7 350 22 HOH HOH . T 4 HOH H 8 351 41 HOH HOH . T 4 HOH H 9 352 54 HOH HOH . T 4 HOH H 10 353 55 HOH HOH . T 4 HOH H 11 354 65 HOH HOH . T 4 HOH H 12 355 71 HOH HOH . T 4 HOH H 13 356 85 HOH HOH . T 4 HOH H 14 357 86 HOH HOH . T 4 HOH H 15 358 237 HOH HOH . T 4 HOH H 16 359 238 HOH HOH . T 4 HOH H 17 360 246 HOH HOH . T 4 HOH H 18 361 249 HOH HOH . T 4 HOH H 19 362 251 HOH HOH . T 4 HOH H 20 363 252 HOH HOH . T 4 HOH H 21 364 255 HOH HOH . T 4 HOH H 22 365 263 HOH HOH . T 4 HOH H 23 366 264 HOH HOH . T 4 HOH H 24 367 5 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 PB ADP . . . K 3 10.087 -13.771 0.879 1 95.86 ? PB ADP 2503 G 1 HETATM 2 O O1B ADP . . . K 3 10.789 -13.427 -0.415 1 96.31 ? O1B ADP 2503 G 1 HETATM 3 O O2B ADP . . . K 3 9.288 -15.051 0.853 1 77.65 ? O2B ADP 2503 G 1 HETATM 4 O O3B ADP . . . K 3 10.987 -13.658 2.086 1 104.15 ? O3B ADP 2503 G 1 HETATM 5 P PA ADP . . . K 3 8.496 -11.459 0.122 1 126.09 ? PA ADP 2503 G 1 HETATM 6 O O1A ADP . . . K 3 9.471 -10.313 -0.014 1 109.19 ? O1A ADP 2503 G 1 HETATM 7 O O2A ADP . . . K 3 8.004 -12.181 -1.12 1 139.19 ? O2A ADP 2503 G 1 HETATM 8 O O3A ADP . . . K 3 9.057 -12.557 1.178 1 143.06 ? O3A ADP 2503 G 1 HETATM 9 O O5' ADP . . . K 3 7.139 -10.946 0.851 1 129.14 ? O5' ADP 2503 G 1 HETATM 10 C C5' ADP . . . K 3 6.99 -10.681 2.251 1 128.64 ? C5' ADP 2503 G 1 HETATM 11 C C4' ADP . . . K 3 5.499 -10.712 2.614 1 130.17 ? C4' ADP 2503 G 1 HETATM 12 O O4' ADP . . . K 3 4.782 -9.742 1.839 1 137.92 ? O4' ADP 2503 G 1 HETATM 13 C C3' ADP . . . K 3 4.861 -12.071 2.331 1 120.38 ? C3' ADP 2503 G 1 HETATM 14 O O3' ADP . . . K 3 4.326 -12.625 3.544 1 99.18 ? O3' ADP 2503 G 1 HETATM 15 C C2' ADP . . . K 3 3.775 -11.833 1.289 1 132.7 ? C2' ADP 2503 G 1 HETATM 16 O O2' ADP . . . K 3 2.517 -12.42 1.653 1 138.65 ? O2' ADP 2503 G 1 HETATM 17 C C1' ADP . . . K 3 3.641 -10.32 1.186 1 136.08 ? C1' ADP 2503 G 1 HETATM 18 N N9 ADP . . . K 3 3.585 -9.885 -0.239 1 129.62 ? N9 ADP 2503 G 1 HETATM 19 C C8 ADP . . . K 3 4.484 -10.177 -1.203 1 124.71 ? C8 ADP 2503 G 1 HETATM 20 N N7 ADP . . . K 3 4.136 -9.612 -2.389 1 119.53 ? N7 ADP 2503 G 1 HETATM 21 C C5 ADP . . . K 3 2.985 -8.939 -2.189 1 120.03 ? C5 ADP 2503 G 1 HETATM 22 C C6 ADP . . . K 3 2.068 -8.119 -3.022 1 120.09 ? C6 ADP 2503 G 1 HETATM 23 N N6 ADP . . . K 3 2.323 -7.904 -4.337 1 117 ? N6 ADP 2503 G 1 HETATM 24 N N1 ADP . . . K 3 0.97 -7.6 -2.421 1 123.28 ? N1 ADP 2503 G 1 HETATM 25 C C2 ADP . . . K 3 0.708 -7.81 -1.115 1 121.68 ? C2 ADP 2503 G 1 HETATM 26 N N3 ADP . . . K 3 1.494 -8.539 -0.299 1 115.57 ? N3 ADP 2503 G 1 HETATM 27 C C4 ADP . . . K 3 2.625 -9.121 -0.771 1 120.77 ? C4 ADP 2503 G 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #