data_8OUZ # _model_server_result.job_id gh1nGEmGIUjKCYwPuBmtUg _model_server_result.datetime_utc '2024-11-22 21:14:52' _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 8ouz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":401}' # _entry.id 8OUZ # _exptl.entry_id 8OUZ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _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 8OUZ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OUZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N _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 ? _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 5 _struct_asym.id E _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 B OG1 THR 132 B THR 132 1_555 F MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.906 ? metalc ? metalc2 E O3B ADP . B ADP 401 1_555 F MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? metalc ? metalc3 F MG MG . B MG 402 1_555 L O HOH . B HOH 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.862 ? metalc ? metalc4 C OG1 THR 114 C THR 114 1_555 H MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.894 ? metalc ? metalc5 G O3G ATP . C ATP 401 1_555 H MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.868 ? metalc ? metalc6 G O2B ATP . C ATP 401 1_555 H MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.775 ? metalc ? metalc7 H MG MG . C MG 402 1_555 M O HOH . C HOH 512 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc8 D OG1 THR 55 D THR 55 1_555 J MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.833 ? metalc ? metalc9 I O2G ATP . D ATP 301 1_555 J MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc10 I O2B ATP . D ATP 301 1_555 J MG MG . D MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.855 ? metalc ? metalc11 J MG MG . D MG 302 1_555 N O HOH . D HOH 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.914 ? # _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 8OUZ _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 5 ADP B 1 401 350 ADP ADP . F 6 MG B 1 402 351 MG MG . G 7 ATP C 1 401 315 ATP ATP . H 6 MG C 1 402 316 MG MG . I 7 ATP D 1 301 281 ATP ATP . J 6 MG D 1 302 282 MG MG . K 8 HOH A 1 401 80 HOH HOH . K 8 HOH A 2 402 75 HOH HOH . K 8 HOH A 3 403 77 HOH HOH . K 8 HOH A 4 404 79 HOH HOH . K 8 HOH A 5 405 76 HOH HOH . K 8 HOH A 6 406 78 HOH HOH . L 8 HOH B 1 501 358 HOH HOH . L 8 HOH B 2 502 370 HOH HOH . L 8 HOH B 3 503 363 HOH HOH . L 8 HOH B 4 504 397 HOH HOH . L 8 HOH B 5 505 369 HOH HOH . L 8 HOH B 6 506 391 HOH HOH . L 8 HOH B 7 507 392 HOH HOH . L 8 HOH B 8 508 384 HOH HOH . L 8 HOH B 9 509 390 HOH HOH . L 8 HOH B 10 510 357 HOH HOH . L 8 HOH B 11 511 367 HOH HOH . L 8 HOH B 12 512 399 HOH HOH . L 8 HOH B 13 513 386 HOH HOH . L 8 HOH B 14 514 389 HOH HOH . L 8 HOH B 15 515 368 HOH HOH . L 8 HOH B 16 516 394 HOH HOH . L 8 HOH B 17 517 395 HOH HOH . L 8 HOH B 18 518 375 HOH HOH . L 8 HOH B 19 519 362 HOH HOH . L 8 HOH B 20 520 355 HOH HOH . L 8 HOH B 21 521 385 HOH HOH . L 8 HOH B 22 522 372 HOH HOH . L 8 HOH B 23 523 377 HOH HOH . L 8 HOH B 24 524 352 HOH HOH . L 8 HOH B 25 525 360 HOH HOH . L 8 HOH B 26 526 354 HOH HOH . L 8 HOH B 27 527 387 HOH HOH . L 8 HOH B 28 528 359 HOH HOH . L 8 HOH B 29 529 374 HOH HOH . L 8 HOH B 30 530 381 HOH HOH . L 8 HOH B 31 531 393 HOH HOH . L 8 HOH B 32 532 356 HOH HOH . L 8 HOH B 33 533 388 HOH HOH . L 8 HOH B 34 534 366 HOH HOH . L 8 HOH B 35 535 364 HOH HOH . L 8 HOH B 36 536 353 HOH HOH . L 8 HOH B 37 537 378 HOH HOH . L 8 HOH B 38 538 383 HOH HOH . L 8 HOH B 39 539 361 HOH HOH . L 8 HOH B 40 540 74 HOH HOH . L 8 HOH B 41 541 376 HOH HOH . L 8 HOH B 42 542 380 HOH HOH . L 8 HOH B 43 543 382 HOH HOH . L 8 HOH B 44 544 379 HOH HOH . L 8 HOH B 45 545 373 HOH HOH . L 8 HOH B 46 546 365 HOH HOH . L 8 HOH B 47 547 396 HOH HOH . L 8 HOH B 48 548 398 HOH HOH . L 8 HOH B 49 549 371 HOH HOH . L 8 HOH B 50 550 337 HOH HOH . L 8 HOH B 51 551 354 HOH HOH . M 8 HOH C 1 501 359 HOH HOH . M 8 HOH C 2 502 357 HOH HOH . M 8 HOH C 3 503 342 HOH HOH . M 8 HOH C 4 504 353 HOH HOH . M 8 HOH C 5 505 351 HOH HOH . M 8 HOH C 6 506 317 HOH HOH . M 8 HOH C 7 507 340 HOH HOH . M 8 HOH C 8 508 334 HOH HOH . M 8 HOH C 9 509 344 HOH HOH . M 8 HOH C 10 510 328 HOH HOH . M 8 HOH C 11 511 322 HOH HOH . M 8 HOH C 12 512 327 HOH HOH . M 8 HOH C 13 513 318 HOH HOH . M 8 HOH C 14 514 352 HOH HOH . M 8 HOH C 15 515 349 HOH HOH . M 8 HOH C 16 516 346 HOH HOH . M 8 HOH C 17 517 332 HOH HOH . M 8 HOH C 18 518 339 HOH HOH . M 8 HOH C 19 519 335 HOH HOH . M 8 HOH C 20 520 333 HOH HOH . M 8 HOH C 21 521 341 HOH HOH . M 8 HOH C 22 522 319 HOH HOH . M 8 HOH C 23 523 345 HOH HOH . M 8 HOH C 24 524 325 HOH HOH . M 8 HOH C 25 525 321 HOH HOH . M 8 HOH C 26 526 350 HOH HOH . M 8 HOH C 27 527 320 HOH HOH . M 8 HOH C 28 528 336 HOH HOH . M 8 HOH C 29 529 360 HOH HOH . M 8 HOH C 30 530 347 HOH HOH . M 8 HOH C 31 531 348 HOH HOH . M 8 HOH C 32 532 338 HOH HOH . M 8 HOH C 33 533 326 HOH HOH . M 8 HOH C 34 534 361 HOH HOH . M 8 HOH C 35 535 323 HOH HOH . M 8 HOH C 36 536 329 HOH HOH . M 8 HOH C 37 537 358 HOH HOH . M 8 HOH C 38 538 331 HOH HOH . M 8 HOH C 39 539 343 HOH HOH . M 8 HOH C 40 540 356 HOH HOH . M 8 HOH C 41 541 324 HOH HOH . M 8 HOH C 42 542 330 HOH HOH . M 8 HOH C 43 543 355 HOH HOH . N 8 HOH D 1 401 284 HOH HOH . N 8 HOH D 2 402 283 HOH HOH . N 8 HOH D 3 403 314 HOH HOH . N 8 HOH D 4 404 312 HOH HOH . N 8 HOH D 5 405 296 HOH HOH . N 8 HOH D 6 406 301 HOH HOH . N 8 HOH D 7 407 307 HOH HOH . N 8 HOH D 8 408 302 HOH HOH . N 8 HOH D 9 409 309 HOH HOH . N 8 HOH D 10 410 294 HOH HOH . N 8 HOH D 11 411 315 HOH HOH . N 8 HOH D 12 412 295 HOH HOH . N 8 HOH D 13 413 306 HOH HOH . N 8 HOH D 14 414 311 HOH HOH . N 8 HOH D 15 415 291 HOH HOH . N 8 HOH D 16 416 293 HOH HOH . N 8 HOH D 17 417 286 HOH HOH . N 8 HOH D 18 418 310 HOH HOH . N 8 HOH D 19 419 285 HOH HOH . N 8 HOH D 20 420 317 HOH HOH . N 8 HOH D 21 421 313 HOH HOH . N 8 HOH D 22 422 316 HOH HOH . N 8 HOH D 23 423 299 HOH HOH . N 8 HOH D 24 424 303 HOH HOH . N 8 HOH D 25 425 290 HOH HOH . N 8 HOH D 26 426 298 HOH HOH . N 8 HOH D 27 427 292 HOH HOH . N 8 HOH D 28 428 324 HOH HOH . N 8 HOH D 29 429 300 HOH HOH . N 8 HOH D 30 430 308 HOH HOH . N 8 HOH D 31 431 288 HOH HOH . N 8 HOH D 32 432 321 HOH HOH . N 8 HOH D 33 433 322 HOH HOH . N 8 HOH D 34 434 297 HOH HOH . N 8 HOH D 35 435 318 HOH HOH . N 8 HOH D 36 436 304 HOH HOH . N 8 HOH D 37 437 323 HOH HOH . N 8 HOH D 38 438 287 HOH HOH . N 8 HOH D 39 439 305 HOH HOH . N 8 HOH D 40 440 289 HOH HOH . N 8 HOH D 41 441 320 HOH HOH . N 8 HOH D 42 442 319 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 . . . E 5 140.057 190.256 166.645 1 45.7 ? PB ADP 401 B 1 HETATM 2 O O1B ADP . . . E 5 139.88 189.762 165.233 1 52.09 ? O1B ADP 401 B 1 HETATM 3 O O2B ADP . . . E 5 141.234 191.178 166.851 1 51.95 ? O2B ADP 401 B 1 HETATM 4 O O3B ADP . . . E 5 139.895 189.182 167.688 1 55.35 ? O3B ADP 401 B 1 HETATM 5 P PA ADP . . . E 5 138.456 191.833 168.319 1 56.98 ? PA ADP 401 B 1 HETATM 6 O O1A ADP . . . E 5 139.706 192.408 168.937 1 58.97 ? O1A ADP 401 B 1 HETATM 7 O O2A ADP . . . E 5 137.631 190.833 169.086 1 46.61 ? O2A ADP 401 B 1 HETATM 8 O O3A ADP . . . E 5 138.795 191.22 166.872 1 57.31 ? O3A ADP 401 B 1 HETATM 9 O O5' ADP . . . E 5 137.498 193.054 167.916 1 54.36 ? O5' ADP 401 B 1 HETATM 10 C C5' ADP . . . E 5 136.49 193.487 168.816 1 53.57 ? C5' ADP 401 B 1 HETATM 11 C C4' ADP . . . E 5 135.663 194.59 168.171 1 57.69 ? C4' ADP 401 B 1 HETATM 12 O O4' ADP . . . E 5 134.44 194.746 168.889 1 60.75 ? O4' ADP 401 B 1 HETATM 13 C C3' ADP . . . E 5 136.38 195.93 168.175 1 58.19 ? C3' ADP 401 B 1 HETATM 14 O O3' ADP . . . E 5 136.812 196.276 166.855 1 59.43 ? O3' ADP 401 B 1 HETATM 15 C C2' ADP . . . E 5 135.372 196.934 168.701 1 58.11 ? C2' ADP 401 B 1 HETATM 16 O O2' ADP . . . E 5 135.054 197.905 167.699 1 59.23 ? O2' ADP 401 B 1 HETATM 17 C C1' ADP . . . E 5 134.136 196.128 169.078 1 58.28 ? C1' ADP 401 B 1 HETATM 18 N N9 ADP . . . E 5 133.745 196.35 170.494 1 57.46 ? N9 ADP 401 B 1 HETATM 19 C C8 ADP . . . E 5 134.545 196.199 171.568 1 57.8 ? C8 ADP 401 B 1 HETATM 20 N N7 ADP . . . E 5 133.871 196.481 172.713 1 59.24 ? N7 ADP 401 B 1 HETATM 21 C C5 ADP . . . E 5 132.614 196.816 172.375 1 58.8 ? C5 ADP 401 B 1 HETATM 22 C C6 ADP . . . E 5 131.386 197.222 173.095 1 59.56 ? C6 ADP 401 B 1 HETATM 23 N N6 ADP . . . E 5 131.37 197.329 174.445 1 60.2 ? N6 ADP 401 B 1 HETATM 24 N N1 ADP . . . E 5 130.283 197.482 172.358 1 59.43 ? N1 ADP 401 B 1 HETATM 25 C C2 ADP . . . E 5 130.277 197.381 171.015 1 58.17 ? C2 ADP 401 B 1 HETATM 26 N N3 ADP . . . E 5 131.36 197.017 170.304 1 56.49 ? N3 ADP 401 B 1 HETATM 27 C C4 ADP . . . E 5 132.535 196.729 170.911 1 58.26 ? C4 ADP 401 B 1 HETATM 28 H "H5'1" ADP . . . E 5 136.944 193.848 169.742 1 55.52 ? "H5'1" ADP 401 B 1 HETATM 29 H "H5'2" ADP . . . E 5 135.844 192.644 169.059 1 55.19 ? "H5'2" ADP 401 B 1 HETATM 30 H H4' ADP . . . E 5 135.451 194.307 167.131 1 55.48 ? H4' ADP 401 B 1 HETATM 31 H H3' ADP . . . E 5 137.238 195.885 168.86 1 55.76 ? H3' ADP 401 B 1 HETATM 32 H HO3' ADP . . . E 5 137.402 197.042 166.898 1 55.81 ? HO3' ADP 401 B 1 HETATM 33 H H2' ADP . . . E 5 135.787 197.431 169.589 1 55.86 ? H2' ADP 401 B 1 HETATM 34 H HO2' ADP . . . E 5 135.823 198.468 167.536 1 56.11 ? HO2' ADP 401 B 1 HETATM 35 H H1' ADP . . . E 5 133.31 196.421 168.415 1 55.87 ? H1' ADP 401 B 1 HETATM 36 H H8 ADP . . . E 5 135.585 195.899 171.524 1 55.32 ? H8 ADP 401 B 1 HETATM 37 H HN61 ADP . . . E 5 132.205 197.13 174.977 1 56.1 ? HN61 ADP 401 B 1 HETATM 38 H HN62 ADP . . . E 5 130.523 197.608 174.92 1 56.78 ? HN62 ADP 401 B 1 HETATM 39 H H2 ADP . . . E 5 129.36 197.604 170.484 1 56.78 ? H2 ADP 401 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 39 #