data_4O7N # _model_server_result.job_id T-AnQoR2C9ILWie9P0T55Q _model_server_result.datetime_utc '2025-01-02 19:18:44' _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 4o7n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 4O7N # _exptl.entry_id 4O7N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 4 _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 4O7N _cell.length_a 44.1 _cell.length_b 154.5 _cell.length_c 78.41 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4O7N _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -39.205 # _struct_asym.details ? _struct_asym.entity_id 4 _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 E O1B ADP . A ADP 304 1_555 F MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc2 E O2A ADP . A ADP 304 1_555 F MG MG . A MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc3 F MG MG . A MG 305 1_555 G O HOH . A HOH 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? # _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 7 n n PB O2B ADP sing 8 n n PB O3B ADP sing 9 n n PB O3A ADP sing 10 n n O2B HOB2 ADP sing 11 n n O3B HOB3 ADP sing 12 n n PA O1A ADP doub 13 n n PA O2A ADP sing 14 n n PA O3A ADP sing 15 n n PA O5' ADP sing 16 n n O2A HOA2 ADP sing 17 n n O5' C5' ADP sing 18 n n C5' C4' ADP sing 19 n n C5' "H5'1" ADP sing 20 n n C5' "H5'2" ADP sing 21 n n C4' O4' ADP sing 22 n n C4' C3' ADP sing 23 n n C4' H4' ADP sing 24 n n O4' C1' ADP sing 25 n n C3' O3' ADP sing 26 n n C3' C2' ADP sing 27 n n C3' H3' ADP sing 28 n n O3' HO3' ADP sing 29 n n C2' O2' ADP sing 30 n n C2' C1' ADP sing 31 n n C2' H2' ADP sing 32 n n O2' HO2' ADP sing 33 n n C1' N9 ADP sing 34 n n C1' H1' ADP sing 35 n n N9 C8 ADP sing 36 n y N9 C4 ADP sing 37 n y C8 N7 ADP doub 38 n y C8 H8 ADP sing 39 n n N7 C5 ADP sing 40 n y C5 C6 ADP sing 41 n y C5 C4 ADP doub 42 n y C6 N6 ADP sing 43 n n C6 N1 ADP doub 44 n y N6 HN61 ADP sing 45 n n N6 HN62 ADP sing 46 n n N1 C2 ADP sing 47 n y C2 N3 ADP doub 48 n y C2 H2 ADP sing 49 n n N3 C4 ADP sing 50 n y # _atom_sites.entry_id 4O7N _atom_sites.fract_transf_matrix[1][1] 0.022676 _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] 0.006472 _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] 0.012753 _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 PO4 A 1 301 500 PO4 PO4 . C 2 PO4 A 1 302 501 PO4 PO4 . D 3 ACT A 1 303 502 ACT ACT . E 4 ADP A 1 304 430 ADP ADP . F 5 MG A 1 305 505 MG MG . G 6 HOH A 1 401 300 HOH HOH . G 6 HOH A 2 402 301 HOH HOH . G 6 HOH A 3 403 302 HOH HOH . G 6 HOH A 4 404 303 HOH HOH . G 6 HOH A 5 405 304 HOH HOH . G 6 HOH A 6 406 305 HOH HOH . G 6 HOH A 7 407 306 HOH HOH . G 6 HOH A 8 408 307 HOH HOH . G 6 HOH A 9 409 308 HOH HOH . G 6 HOH A 10 410 309 HOH HOH . G 6 HOH A 11 411 310 HOH HOH . G 6 HOH A 12 412 311 HOH HOH . G 6 HOH A 13 413 312 HOH HOH . G 6 HOH A 14 414 313 HOH HOH . G 6 HOH A 15 415 314 HOH HOH . G 6 HOH A 16 416 315 HOH HOH . G 6 HOH A 17 417 316 HOH HOH . G 6 HOH A 18 418 317 HOH HOH . G 6 HOH A 19 419 318 HOH HOH . G 6 HOH A 20 420 319 HOH HOH . G 6 HOH A 21 421 320 HOH HOH . G 6 HOH A 22 422 322 HOH HOH . G 6 HOH A 23 423 323 HOH HOH . G 6 HOH A 24 424 324 HOH HOH . G 6 HOH A 25 425 325 HOH HOH . G 6 HOH A 26 426 326 HOH HOH . G 6 HOH A 27 427 327 HOH HOH . G 6 HOH A 28 428 328 HOH HOH . G 6 HOH A 29 429 329 HOH HOH . G 6 HOH A 30 430 330 HOH HOH . G 6 HOH A 31 431 331 HOH HOH . G 6 HOH A 32 432 332 HOH HOH . G 6 HOH A 33 433 333 HOH HOH . G 6 HOH A 34 434 334 HOH HOH . G 6 HOH A 35 435 335 HOH HOH . G 6 HOH A 36 436 336 HOH HOH . G 6 HOH A 37 437 337 HOH HOH . G 6 HOH A 38 438 338 HOH HOH . G 6 HOH A 39 439 339 HOH HOH . G 6 HOH A 40 440 340 HOH HOH . G 6 HOH A 41 441 341 HOH HOH . G 6 HOH A 42 442 342 HOH HOH . G 6 HOH A 43 443 343 HOH HOH . G 6 HOH A 44 444 344 HOH HOH . G 6 HOH A 45 445 345 HOH HOH . G 6 HOH A 46 446 346 HOH HOH . G 6 HOH A 47 447 347 HOH HOH . G 6 HOH A 48 448 348 HOH HOH . G 6 HOH A 49 449 349 HOH HOH . G 6 HOH A 50 450 350 HOH HOH . G 6 HOH A 51 451 351 HOH HOH . G 6 HOH A 52 452 352 HOH HOH . G 6 HOH A 53 453 353 HOH HOH . G 6 HOH A 54 454 354 HOH HOH . G 6 HOH A 55 455 355 HOH HOH . G 6 HOH A 56 456 356 HOH HOH . G 6 HOH A 57 457 357 HOH HOH . G 6 HOH A 58 458 358 HOH HOH . G 6 HOH A 59 459 359 HOH HOH . G 6 HOH A 60 460 360 HOH HOH . G 6 HOH A 61 461 361 HOH HOH . G 6 HOH A 62 462 362 HOH HOH . G 6 HOH A 63 463 363 HOH HOH . G 6 HOH A 64 464 364 HOH HOH . G 6 HOH A 65 465 365 HOH HOH . G 6 HOH A 66 466 366 HOH HOH . G 6 HOH A 67 467 367 HOH HOH . G 6 HOH A 68 468 368 HOH HOH . G 6 HOH A 69 469 369 HOH HOH . G 6 HOH A 70 470 370 HOH HOH . G 6 HOH A 71 471 371 HOH HOH . G 6 HOH A 72 472 372 HOH HOH . G 6 HOH A 73 473 373 HOH HOH . G 6 HOH A 74 474 374 HOH HOH . G 6 HOH A 75 475 375 HOH HOH . G 6 HOH A 76 476 376 HOH HOH . G 6 HOH A 77 477 377 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 4 -2.523 14.245 0.895 0.8 37.11 ? PB ADP 304 A 1 HETATM 2 O O1B ADP . . . E 4 -1.687 15.2 0.075 0.8 34.61 ? O1B ADP 304 A 1 HETATM 3 O O2B ADP . . . E 4 -1.957 12.84 0.942 0.8 35.02 ? O2B ADP 304 A 1 HETATM 4 O O3B ADP . . . E 4 -4.003 14.35 0.606 0.8 36.88 ? O3B ADP 304 A 1 HETATM 5 P PA ADP . . . E 4 -1.121 15.152 3.264 0.8 31.78 ? PA ADP 304 A 1 HETATM 6 O O1A ADP . . . E 4 -0.638 13.925 4.001 0.8 33.38 ? O1A ADP 304 A 1 HETATM 7 O O2A ADP . . . E 4 -0.119 15.886 2.399 0.8 32 ? O2A ADP 304 A 1 HETATM 8 O O3A ADP . . . E 4 -2.456 14.779 2.426 0.8 34.1 ? O3A ADP 304 A 1 HETATM 9 O O5' ADP . . . E 4 -1.705 16.152 4.394 0.8 30.06 ? O5' ADP 304 A 1 HETATM 10 C C5' ADP . . . E 4 -1.979 17.542 4.142 0.8 27.98 ? C5' ADP 304 A 1 HETATM 11 C C4' ADP . . . E 4 -3.395 17.814 3.609 0.8 25.19 ? C4' ADP 304 A 1 HETATM 12 O O4' ADP . . . E 4 -3.857 19.099 4.063 0.8 24.37 ? O4' ADP 304 A 1 HETATM 13 C C3' ADP . . . E 4 -3.441 17.93 2.098 0.8 25.21 ? C3' ADP 304 A 1 HETATM 14 O O3' ADP . . . E 4 -4.765 17.569 1.678 0.8 24.95 ? O3' ADP 304 A 1 HETATM 15 C C2' ADP . . . E 4 -3.201 19.419 1.857 0.8 24.31 ? C2' ADP 304 A 1 HETATM 16 O O2' ADP . . . E 4 -3.64 19.868 0.577 0.8 24.39 ? O2' ADP 304 A 1 HETATM 17 C C1' ADP . . . E 4 -4.003 20.041 2.98 0.8 22.85 ? C1' ADP 304 A 1 HETATM 18 N N9 ADP . . . E 4 -3.483 21.325 3.501 0.8 22.19 ? N9 ADP 304 A 1 HETATM 19 C C8 ADP . . . E 4 -2.189 21.708 3.593 0.8 20.98 ? C8 ADP 304 A 1 HETATM 20 N N7 ADP . . . E 4 -2.085 22.929 4.164 0.8 21.06 ? N7 ADP 304 A 1 HETATM 21 C C5 ADP . . . E 4 -3.345 23.337 4.478 0.8 21.69 ? C5 ADP 304 A 1 HETATM 22 C C6 ADP . . . E 4 -3.996 24.525 5.103 0.8 20.71 ? C6 ADP 304 A 1 HETATM 23 N N6 ADP . . . E 4 -3.278 25.568 5.551 0.8 19.45 ? N6 ADP 304 A 1 HETATM 24 N N1 ADP . . . E 4 -5.349 24.539 5.21 0.8 21.62 ? N1 ADP 304 A 1 HETATM 25 C C2 ADP . . . E 4 -6.121 23.524 4.783 0.8 20.71 ? C2 ADP 304 A 1 HETATM 26 N N3 ADP . . . E 4 -5.6 22.423 4.223 0.8 21.35 ? N3 ADP 304 A 1 HETATM 27 C C4 ADP . . . E 4 -4.258 22.27 4.041 0.8 21.54 ? C4 ADP 304 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #