data_5JZV # _model_server_result.job_id WxI8WnI3Yaiia_sucB_BlA _model_server_result.datetime_utc '2024-11-15 19:24:32' _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 5jzv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5JZV # _exptl.entry_id 5JZV _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 120 _cell.entry_id 5JZV _cell.length_a 101.757 _cell.length_b 101.757 _cell.length_c 58.854 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JZV _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 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 5JZV _atom_sites.fract_transf_matrix[1][1] 0.009827 _atom_sites.fract_transf_matrix[1][2] 0.005674 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011348 _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] 0.016991 _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 A 1 201 201 ADP ADP . C 3 HOH A 1 301 466 HOH HOH . C 3 HOH A 2 302 385 HOH HOH . C 3 HOH A 3 303 352 HOH HOH . C 3 HOH A 4 304 330 HOH HOH . C 3 HOH A 5 305 463 HOH HOH . C 3 HOH A 6 306 433 HOH HOH . C 3 HOH A 7 307 392 HOH HOH . C 3 HOH A 8 308 389 HOH HOH . C 3 HOH A 9 309 335 HOH HOH . C 3 HOH A 10 310 443 HOH HOH . C 3 HOH A 11 311 399 HOH HOH . C 3 HOH A 12 312 451 HOH HOH . C 3 HOH A 13 313 455 HOH HOH . C 3 HOH A 14 314 449 HOH HOH . C 3 HOH A 15 315 347 HOH HOH . C 3 HOH A 16 316 393 HOH HOH . C 3 HOH A 17 317 417 HOH HOH . C 3 HOH A 18 318 343 HOH HOH . C 3 HOH A 19 319 381 HOH HOH . C 3 HOH A 20 320 416 HOH HOH . C 3 HOH A 21 321 379 HOH HOH . C 3 HOH A 22 322 367 HOH HOH . C 3 HOH A 23 323 383 HOH HOH . C 3 HOH A 24 324 356 HOH HOH . C 3 HOH A 25 325 360 HOH HOH . C 3 HOH A 26 326 435 HOH HOH . C 3 HOH A 27 327 404 HOH HOH . C 3 HOH A 28 328 464 HOH HOH . C 3 HOH A 29 329 337 HOH HOH . C 3 HOH A 30 330 308 HOH HOH . C 3 HOH A 31 331 401 HOH HOH . C 3 HOH A 32 332 313 HOH HOH . C 3 HOH A 33 333 315 HOH HOH . C 3 HOH A 34 334 334 HOH HOH . C 3 HOH A 35 335 314 HOH HOH . C 3 HOH A 36 336 344 HOH HOH . C 3 HOH A 37 337 412 HOH HOH . C 3 HOH A 38 338 340 HOH HOH . C 3 HOH A 39 339 336 HOH HOH . C 3 HOH A 40 340 411 HOH HOH . C 3 HOH A 41 341 333 HOH HOH . C 3 HOH A 42 342 318 HOH HOH . C 3 HOH A 43 343 400 HOH HOH . C 3 HOH A 44 344 471 HOH HOH . C 3 HOH A 45 345 405 HOH HOH . C 3 HOH A 46 346 324 HOH HOH . C 3 HOH A 47 347 410 HOH HOH . C 3 HOH A 48 348 380 HOH HOH . C 3 HOH A 49 349 364 HOH HOH . C 3 HOH A 50 350 361 HOH HOH . C 3 HOH A 51 351 359 HOH HOH . C 3 HOH A 52 352 326 HOH HOH . C 3 HOH A 53 353 445 HOH HOH . C 3 HOH A 54 354 316 HOH HOH . C 3 HOH A 55 355 351 HOH HOH . C 3 HOH A 56 356 402 HOH HOH . C 3 HOH A 57 357 396 HOH HOH . C 3 HOH A 58 358 407 HOH HOH . C 3 HOH A 59 359 346 HOH HOH . C 3 HOH A 60 360 349 HOH HOH . C 3 HOH A 61 361 424 HOH HOH . C 3 HOH A 62 362 406 HOH HOH . C 3 HOH A 63 363 429 HOH HOH . C 3 HOH A 64 364 310 HOH HOH . C 3 HOH A 65 365 320 HOH HOH . C 3 HOH A 66 366 329 HOH HOH . C 3 HOH A 67 367 304 HOH HOH . C 3 HOH A 68 368 327 HOH HOH . C 3 HOH A 69 369 459 HOH HOH . C 3 HOH A 70 370 438 HOH HOH . C 3 HOH A 71 371 311 HOH HOH . C 3 HOH A 72 372 388 HOH HOH . C 3 HOH A 73 373 377 HOH HOH . C 3 HOH A 74 374 425 HOH HOH . C 3 HOH A 75 375 422 HOH HOH . C 3 HOH A 76 376 398 HOH HOH . C 3 HOH A 77 377 301 HOH HOH . C 3 HOH A 78 378 339 HOH HOH . C 3 HOH A 79 379 427 HOH HOH . C 3 HOH A 80 380 437 HOH HOH . C 3 HOH A 81 381 309 HOH HOH . C 3 HOH A 82 382 448 HOH HOH . C 3 HOH A 83 383 348 HOH HOH . C 3 HOH A 84 384 303 HOH HOH . C 3 HOH A 85 385 321 HOH HOH . C 3 HOH A 86 386 408 HOH HOH . C 3 HOH A 87 387 317 HOH HOH . C 3 HOH A 88 388 363 HOH HOH . C 3 HOH A 89 389 305 HOH HOH . C 3 HOH A 90 390 397 HOH HOH . C 3 HOH A 91 391 341 HOH HOH . C 3 HOH A 92 392 434 HOH HOH . C 3 HOH A 93 393 456 HOH HOH . C 3 HOH A 94 394 342 HOH HOH . C 3 HOH A 95 395 378 HOH HOH . C 3 HOH A 96 396 332 HOH HOH . C 3 HOH A 97 397 395 HOH HOH . C 3 HOH A 98 398 457 HOH HOH . C 3 HOH A 99 399 465 HOH HOH . C 3 HOH A 100 400 355 HOH HOH . C 3 HOH A 101 401 374 HOH HOH . C 3 HOH A 102 402 345 HOH HOH . C 3 HOH A 103 403 307 HOH HOH . C 3 HOH A 104 404 454 HOH HOH . C 3 HOH A 105 405 323 HOH HOH . C 3 HOH A 106 406 375 HOH HOH . C 3 HOH A 107 407 319 HOH HOH . C 3 HOH A 108 408 462 HOH HOH . C 3 HOH A 109 409 366 HOH HOH . C 3 HOH A 110 410 350 HOH HOH . C 3 HOH A 111 411 371 HOH HOH . C 3 HOH A 112 412 403 HOH HOH . C 3 HOH A 113 413 353 HOH HOH . C 3 HOH A 114 414 338 HOH HOH . C 3 HOH A 115 415 452 HOH HOH . C 3 HOH A 116 416 369 HOH HOH . C 3 HOH A 117 417 409 HOH HOH . C 3 HOH A 118 418 431 HOH HOH . C 3 HOH A 119 419 312 HOH HOH . C 3 HOH A 120 420 421 HOH HOH . C 3 HOH A 121 421 439 HOH HOH . C 3 HOH A 122 422 387 HOH HOH . C 3 HOH A 123 423 426 HOH HOH . C 3 HOH A 124 424 458 HOH HOH . C 3 HOH A 125 425 428 HOH HOH . C 3 HOH A 126 426 322 HOH HOH . C 3 HOH A 127 427 325 HOH HOH . C 3 HOH A 128 428 430 HOH HOH . C 3 HOH A 129 429 306 HOH HOH . C 3 HOH A 130 430 436 HOH HOH . C 3 HOH A 131 431 362 HOH HOH . C 3 HOH A 132 432 447 HOH HOH . C 3 HOH A 133 433 368 HOH HOH . C 3 HOH A 134 434 384 HOH HOH . C 3 HOH A 135 435 453 HOH HOH . C 3 HOH A 136 436 446 HOH HOH . C 3 HOH A 137 437 370 HOH HOH . C 3 HOH A 138 438 373 HOH HOH . C 3 HOH A 139 439 302 HOH HOH . C 3 HOH A 140 440 365 HOH HOH . C 3 HOH A 141 441 444 HOH HOH . C 3 HOH A 142 442 450 HOH HOH . C 3 HOH A 143 443 460 HOH HOH . C 3 HOH A 144 444 331 HOH HOH . C 3 HOH A 145 445 415 HOH HOH . C 3 HOH A 146 446 440 HOH HOH . C 3 HOH A 147 447 442 HOH HOH . C 3 HOH A 148 448 386 HOH HOH . C 3 HOH A 149 449 354 HOH HOH . C 3 HOH A 150 450 432 HOH HOH . C 3 HOH A 151 451 357 HOH HOH . C 3 HOH A 152 452 469 HOH HOH . C 3 HOH A 153 453 394 HOH HOH . C 3 HOH A 154 454 391 HOH HOH . C 3 HOH A 155 455 419 HOH HOH . C 3 HOH A 156 456 418 HOH HOH . C 3 HOH A 157 457 441 HOH HOH . C 3 HOH A 158 458 470 HOH HOH . C 3 HOH A 159 459 461 HOH HOH . C 3 HOH A 160 460 413 HOH HOH . C 3 HOH A 161 461 423 HOH HOH . C 3 HOH A 162 462 468 HOH HOH . C 3 HOH A 163 463 358 HOH HOH . C 3 HOH A 164 464 328 HOH HOH . C 3 HOH A 165 465 382 HOH HOH . C 3 HOH A 166 466 390 HOH HOH . C 3 HOH A 167 467 467 HOH HOH . C 3 HOH A 168 468 376 HOH HOH . C 3 HOH A 169 469 414 HOH HOH . C 3 HOH A 170 470 372 HOH HOH . C 3 HOH A 171 471 420 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 -12.692 -32.839 7.489 1 25.24 ? PB ADP 201 A 1 HETATM 2 O O1B ADP . . . B 2 -12.061 -32.948 6.138 1 23.85 ? O1B ADP 201 A 1 HETATM 3 O O2B ADP . . . B 2 -12.143 -33.902 8.369 1 27.17 ? O2B ADP 201 A 1 HETATM 4 O O3B ADP . . . B 2 -14.209 -32.773 7.41 1 25.94 ? O3B ADP 201 A 1 HETATM 5 P PA ADP . . . B 2 -13.319 -30.309 8.868 1 50.49 ? PA ADP 201 A 1 HETATM 6 O O1A ADP . . . B 2 -14.541 -29.661 8.245 1 29.07 ? O1A ADP 201 A 1 HETATM 7 O O2A ADP . . . B 2 -13.786 -30.964 10.196 1 48.79 ? O2A ADP 201 A 1 HETATM 8 O O3A ADP . . . B 2 -12.279 -31.439 8.09 1 28.53 ? O3A ADP 201 A 1 HETATM 9 O O5' ADP . . . B 2 -12.175 -29.182 9.247 1 49.26 ? O5' ADP 201 A 1 HETATM 10 C C5' ADP . . . B 2 -11.198 -29.489 10.259 1 52.91 ? C5' ADP 201 A 1 HETATM 11 C C4' ADP . . . B 2 -10.795 -28.185 10.97 1 56.68 ? C4' ADP 201 A 1 HETATM 12 O O4' ADP . . . B 2 -10.275 -27.283 9.995 1 58.11 ? O4' ADP 201 A 1 HETATM 13 C C3' ADP . . . B 2 -11.963 -27.454 11.633 1 58.1 ? C3' ADP 201 A 1 HETATM 14 O O3' ADP . . . B 2 -11.381 -26.895 12.792 1 57.64 ? O3' ADP 201 A 1 HETATM 15 C C2' ADP . . . B 2 -12.353 -26.342 10.642 1 61.06 ? C2' ADP 201 A 1 HETATM 16 O O2' ADP . . . B 2 -12.813 -25.1 11.205 1 60.94 ? O2' ADP 201 A 1 HETATM 17 C C1' ADP . . . B 2 -11.017 -26.042 9.98 1 60.01 ? C1' ADP 201 A 1 HETATM 18 N N9 ADP . . . B 2 -11.049 -25.52 8.596 1 58.52 ? N9 ADP 201 A 1 HETATM 19 C C8 ADP . . . B 2 -11.669 -26.07 7.527 1 53.12 ? C8 ADP 201 A 1 HETATM 20 N N7 ADP . . . B 2 -11.467 -25.341 6.412 1 49.1 ? N7 ADP 201 A 1 HETATM 21 C C5 ADP . . . B 2 -10.653 -24.314 6.76 1 58.09 ? C5 ADP 201 A 1 HETATM 22 C C6 ADP . . . B 2 -10.021 -23.162 6.053 1 58.72 ? C6 ADP 201 A 1 HETATM 23 N N6 ADP . . . B 2 -10.227 -23.068 4.693 1 53.98 ? N6 ADP 201 A 1 HETATM 24 N N1 ADP . . . B 2 -9.258 -22.279 6.83 1 60.53 ? N1 ADP 201 A 1 HETATM 25 C C2 ADP . . . B 2 -9 -22.427 8.175 1 58.82 ? C2 ADP 201 A 1 HETATM 26 N N3 ADP . . . B 2 -9.549 -23.453 8.871 1 61.06 ? N3 ADP 201 A 1 HETATM 27 C C4 ADP . . . B 2 -10.365 -24.406 8.227 1 59.09 ? C4 ADP 201 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 27 #