data_1P61 # _model_server_result.job_id e0nR7uQ0vJNcdpBC3JQp3Q _model_server_result.datetime_utc '2024-10-16 10:37:07' _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 1p61 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 1P61 # _exptl.entry_id 1P61 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 1P61 _cell.length_a 80.001 _cell.length_b 80.001 _cell.length_c 93.946 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P61 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 80.001 80.001 46.973 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 1P61 _atom_sites.fract_transf_matrix[1][1] 0.0125 _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] 0.0125 _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] 0.010644 _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 ADP B 1 301 301 ADP ADP . C 3 DCZ B 1 302 302 DCZ DCY . D 4 HOH B 1 303 1 HOH HOH . D 4 HOH B 2 304 2 HOH HOH . D 4 HOH B 3 305 3 HOH HOH . D 4 HOH B 4 306 4 HOH HOH . D 4 HOH B 5 307 5 HOH HOH . D 4 HOH B 6 308 6 HOH HOH . D 4 HOH B 7 309 7 HOH HOH . D 4 HOH B 8 310 8 HOH HOH . D 4 HOH B 9 311 9 HOH HOH . D 4 HOH B 10 312 11 HOH HOH . D 4 HOH B 11 313 12 HOH HOH . D 4 HOH B 12 314 13 HOH HOH . D 4 HOH B 13 315 14 HOH HOH . D 4 HOH B 14 316 15 HOH HOH . D 4 HOH B 15 317 16 HOH HOH . D 4 HOH B 16 318 17 HOH HOH . D 4 HOH B 17 319 18 HOH HOH . D 4 HOH B 18 320 19 HOH HOH . D 4 HOH B 19 321 20 HOH HOH . D 4 HOH B 20 322 21 HOH HOH . D 4 HOH B 21 323 23 HOH HOH . D 4 HOH B 22 324 25 HOH HOH . D 4 HOH B 23 325 26 HOH HOH . D 4 HOH B 24 326 27 HOH HOH . D 4 HOH B 25 327 28 HOH HOH . D 4 HOH B 26 328 31 HOH HOH . D 4 HOH B 27 329 32 HOH HOH . D 4 HOH B 28 330 33 HOH HOH . D 4 HOH B 29 331 35 HOH HOH . D 4 HOH B 30 332 37 HOH HOH . D 4 HOH B 31 333 38 HOH HOH . D 4 HOH B 32 334 39 HOH HOH . D 4 HOH B 33 335 40 HOH HOH . D 4 HOH B 34 336 41 HOH HOH . D 4 HOH B 35 337 42 HOH HOH . D 4 HOH B 36 338 43 HOH HOH . D 4 HOH B 37 339 45 HOH HOH . D 4 HOH B 38 340 47 HOH HOH . D 4 HOH B 39 341 49 HOH HOH . D 4 HOH B 40 342 50 HOH HOH . D 4 HOH B 41 343 51 HOH HOH . D 4 HOH B 42 344 52 HOH HOH . D 4 HOH B 43 345 53 HOH HOH . D 4 HOH B 44 346 55 HOH HOH . D 4 HOH B 45 347 56 HOH HOH . D 4 HOH B 46 348 57 HOH HOH . D 4 HOH B 47 349 58 HOH HOH . D 4 HOH B 48 350 59 HOH HOH . D 4 HOH B 49 351 60 HOH HOH . D 4 HOH B 50 352 61 HOH HOH . D 4 HOH B 51 353 62 HOH HOH . D 4 HOH B 52 354 63 HOH HOH . D 4 HOH B 53 355 64 HOH HOH . D 4 HOH B 54 356 65 HOH HOH . D 4 HOH B 55 357 66 HOH HOH . D 4 HOH B 56 358 67 HOH HOH . D 4 HOH B 57 359 68 HOH HOH . D 4 HOH B 58 360 70 HOH HOH . D 4 HOH B 59 361 71 HOH HOH . D 4 HOH B 60 362 72 HOH HOH . D 4 HOH B 61 363 73 HOH HOH . D 4 HOH B 62 364 75 HOH HOH . D 4 HOH B 63 365 78 HOH HOH . D 4 HOH B 64 366 81 HOH HOH . D 4 HOH B 65 367 82 HOH HOH . D 4 HOH B 66 368 83 HOH HOH . D 4 HOH B 67 369 84 HOH HOH . D 4 HOH B 68 370 87 HOH HOH . D 4 HOH B 69 371 88 HOH HOH . D 4 HOH B 70 372 89 HOH HOH . D 4 HOH B 71 373 92 HOH HOH . D 4 HOH B 72 374 95 HOH HOH . D 4 HOH B 73 375 96 HOH HOH . D 4 HOH B 74 376 97 HOH HOH . D 4 HOH B 75 377 98 HOH HOH . D 4 HOH B 76 378 99 HOH HOH . D 4 HOH B 77 379 100 HOH HOH . D 4 HOH B 78 380 102 HOH HOH . D 4 HOH B 79 381 103 HOH HOH . D 4 HOH B 80 382 104 HOH HOH . D 4 HOH B 81 383 105 HOH HOH . D 4 HOH B 82 384 106 HOH HOH . D 4 HOH B 83 385 108 HOH HOH . D 4 HOH B 84 386 109 HOH HOH . D 4 HOH B 85 387 110 HOH HOH . D 4 HOH B 86 388 117 HOH HOH . D 4 HOH B 87 389 120 HOH HOH . D 4 HOH B 88 390 121 HOH HOH . D 4 HOH B 89 391 123 HOH HOH . D 4 HOH B 90 392 124 HOH HOH . D 4 HOH B 91 393 126 HOH HOH . D 4 HOH B 92 394 130 HOH HOH . D 4 HOH B 93 395 131 HOH HOH . D 4 HOH B 94 396 133 HOH HOH . D 4 HOH B 95 397 134 HOH HOH . D 4 HOH B 96 398 135 HOH HOH . D 4 HOH B 97 399 136 HOH HOH . D 4 HOH B 98 400 137 HOH HOH . D 4 HOH B 99 401 141 HOH HOH . D 4 HOH B 100 402 145 HOH HOH . D 4 HOH B 101 403 148 HOH HOH . D 4 HOH B 102 404 150 HOH HOH . D 4 HOH B 103 405 151 HOH HOH . D 4 HOH B 104 406 152 HOH HOH . D 4 HOH B 105 407 153 HOH HOH . D 4 HOH B 106 408 154 HOH HOH . D 4 HOH B 107 409 156 HOH HOH . D 4 HOH B 108 410 157 HOH HOH . D 4 HOH B 109 411 164 HOH HOH . D 4 HOH B 110 412 167 HOH HOH . D 4 HOH B 111 413 170 HOH HOH . D 4 HOH B 112 414 171 HOH HOH . D 4 HOH B 113 415 177 HOH HOH . D 4 HOH B 114 416 178 HOH HOH . D 4 HOH B 115 417 180 HOH HOH . D 4 HOH B 116 418 181 HOH HOH . D 4 HOH B 117 419 182 HOH HOH . D 4 HOH B 118 420 183 HOH HOH . D 4 HOH B 119 421 184 HOH HOH . D 4 HOH B 120 422 185 HOH HOH . D 4 HOH B 121 423 186 HOH HOH . D 4 HOH B 122 424 187 HOH HOH . D 4 HOH B 123 425 188 HOH HOH . D 4 HOH B 124 426 190 HOH HOH . D 4 HOH B 125 427 191 HOH HOH . D 4 HOH B 126 428 193 HOH HOH . D 4 HOH B 127 429 195 HOH HOH . D 4 HOH B 128 430 196 HOH HOH . D 4 HOH B 129 431 198 HOH HOH . D 4 HOH B 130 432 199 HOH HOH . D 4 HOH B 131 433 200 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 . . . B 2 72.698 42.541 19.193 1 34.75 ? PB ADP 301 B 1 HETATM 2 O O1B ADP . . . B 2 73.092 41.157 19.699 1 36.74 ? O1B ADP 301 B 1 HETATM 3 O O2B ADP . . . B 2 71.731 43.325 20.009 1 36.98 ? O2B ADP 301 B 1 HETATM 4 O O3B ADP . . . B 2 72.252 42.664 17.802 1 37.79 ? O3B ADP 301 B 1 HETATM 5 P PA ADP . . . B 2 74.766 44.187 20.478 1 36.34 ? PA ADP 301 B 1 HETATM 6 O O1A ADP . . . B 2 74.231 45.597 20.445 1 32.89 ? O1A ADP 301 B 1 HETATM 7 O O2A ADP . . . B 2 74.657 43.475 21.797 1 34.03 ? O2A ADP 301 B 1 HETATM 8 O O3A ADP . . . B 2 74.128 43.322 19.277 1 35.49 ? O3A ADP 301 B 1 HETATM 9 O O5' ADP . . . B 2 76.261 44.336 19.965 1 33.46 ? O5' ADP 301 B 1 HETATM 10 C C5' ADP . . . B 2 77.173 43.275 19.867 1 35.78 ? C5' ADP 301 B 1 HETATM 11 C C4' ADP . . . B 2 78.567 43.7 20.266 1 36.25 ? C4' ADP 301 B 1 HETATM 12 O O4' ADP . . . B 2 79.033 44.469 19.173 1 37.83 ? O4' ADP 301 B 1 HETATM 13 C C3' ADP . . . B 2 78.714 44.613 21.49 1 37.62 ? C3' ADP 301 B 1 HETATM 14 O O3' ADP . . . B 2 79.964 44.404 22.095 1 38.35 ? O3' ADP 301 B 1 HETATM 15 C C2' ADP . . . B 2 78.74 46.031 20.974 1 38.04 ? C2' ADP 301 B 1 HETATM 16 O O2' ADP . . . B 2 79.584 46.858 21.75 1 41.21 ? O2' ADP 301 B 1 HETATM 17 C C1' ADP . . . B 2 79.339 45.804 19.605 1 38.26 ? C1' ADP 301 B 1 HETATM 18 N N9 ADP . . . B 2 78.804 46.625 18.506 1 36.95 ? N9 ADP 301 B 1 HETATM 19 C C8 ADP . . . B 2 77.59 46.605 18.008 1 37.35 ? C8 ADP 301 B 1 HETATM 20 N N7 ADP . . . B 2 77.53 47.468 16.948 1 40.65 ? N7 ADP 301 B 1 HETATM 21 C C5 ADP . . . B 2 78.724 47.986 16.758 1 38.92 ? C5 ADP 301 B 1 HETATM 22 C C6 ADP . . . B 2 79.345 48.929 15.785 1 42.22 ? C6 ADP 301 B 1 HETATM 23 N N6 ADP . . . B 2 78.668 49.486 14.86 1 44.27 ? N6 ADP 301 B 1 HETATM 24 N N1 ADP . . . B 2 80.637 49.181 15.954 1 37.68 ? N1 ADP 301 B 1 HETATM 25 C C2 ADP . . . B 2 81.47 48.621 16.989 1 36.76 ? C2 ADP 301 B 1 HETATM 26 N N3 ADP . . . B 2 80.789 47.716 17.848 1 35.5 ? N3 ADP 301 B 1 HETATM 27 C C4 ADP . . . B 2 79.482 47.427 17.716 1 37.22 ? C4 ADP 301 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #