data_1X3M # _model_server_result.job_id f6eW4wOyhwymXLwBTDNORQ _model_server_result.datetime_utc '2024-10-12 21:21:58' _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 1x3m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":403}' # _entry.id 1X3M # _exptl.entry_id 1X3M _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 1X3M _cell.length_a 110.516 _cell.length_b 110.516 _cell.length_c 66.545 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1X3M _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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 _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' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 66.545 # _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 1X3M _atom_sites.fract_transf_matrix[1][1] 0.009048 _atom_sites.fract_transf_matrix[1][2] 0.005224 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010448 _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] 0.015027 _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 1 403 401 ADP ADP . C 3 HOH A 1 404 1 HOH HOH . C 3 HOH A 2 405 2 HOH HOH . C 3 HOH A 3 406 3 HOH HOH . C 3 HOH A 4 407 4 HOH HOH . C 3 HOH A 5 408 5 HOH HOH . C 3 HOH A 6 409 6 HOH HOH . C 3 HOH A 7 410 7 HOH HOH . C 3 HOH A 8 411 8 HOH HOH . C 3 HOH A 9 412 9 HOH HOH . C 3 HOH A 10 413 10 HOH HOH . C 3 HOH A 11 414 11 HOH HOH . C 3 HOH A 12 415 12 HOH HOH . C 3 HOH A 13 416 13 HOH HOH . C 3 HOH A 14 417 14 HOH HOH . C 3 HOH A 15 418 15 HOH HOH . C 3 HOH A 16 419 16 HOH HOH . C 3 HOH A 17 420 17 HOH HOH . C 3 HOH A 18 421 18 HOH HOH . C 3 HOH A 19 422 19 HOH HOH . C 3 HOH A 20 423 20 HOH HOH . C 3 HOH A 21 424 21 HOH HOH . C 3 HOH A 22 425 22 HOH HOH . C 3 HOH A 23 426 23 HOH HOH . C 3 HOH A 24 427 24 HOH HOH . C 3 HOH A 25 428 25 HOH HOH . C 3 HOH A 26 429 26 HOH HOH . C 3 HOH A 27 430 27 HOH HOH . C 3 HOH A 28 431 28 HOH HOH . C 3 HOH A 29 432 29 HOH HOH . C 3 HOH A 30 433 30 HOH HOH . C 3 HOH A 31 434 31 HOH HOH . C 3 HOH A 32 435 32 HOH HOH . C 3 HOH A 33 436 33 HOH HOH . C 3 HOH A 34 437 34 HOH HOH . C 3 HOH A 35 438 35 HOH HOH . C 3 HOH A 36 439 36 HOH HOH . C 3 HOH A 37 440 37 HOH HOH . C 3 HOH A 38 441 38 HOH HOH . C 3 HOH A 39 442 39 HOH HOH . C 3 HOH A 40 443 40 HOH HOH . C 3 HOH A 41 444 41 HOH HOH . C 3 HOH A 42 445 42 HOH HOH . C 3 HOH A 43 446 43 HOH HOH . C 3 HOH A 44 447 44 HOH HOH . C 3 HOH A 45 448 45 HOH HOH . C 3 HOH A 46 449 46 HOH HOH . C 3 HOH A 47 450 47 HOH HOH . C 3 HOH A 48 451 48 HOH HOH . C 3 HOH A 49 452 49 HOH HOH . C 3 HOH A 50 453 50 HOH HOH . C 3 HOH A 51 454 51 HOH HOH . C 3 HOH A 52 455 52 HOH HOH . C 3 HOH A 53 456 53 HOH HOH . C 3 HOH A 54 457 54 HOH HOH . C 3 HOH A 55 458 55 HOH HOH . C 3 HOH A 56 459 56 HOH HOH . C 3 HOH A 57 460 57 HOH HOH . C 3 HOH A 58 461 58 HOH HOH . C 3 HOH A 59 462 59 HOH HOH . C 3 HOH A 60 463 60 HOH HOH . C 3 HOH A 61 464 61 HOH HOH . C 3 HOH A 62 465 62 HOH HOH . C 3 HOH A 63 466 63 HOH HOH . C 3 HOH A 64 467 64 HOH HOH . C 3 HOH A 65 468 65 HOH HOH . C 3 HOH A 66 469 66 HOH HOH . C 3 HOH A 67 470 67 HOH HOH . C 3 HOH A 68 471 68 HOH HOH . C 3 HOH A 69 472 69 HOH HOH . C 3 HOH A 70 473 70 HOH HOH . C 3 HOH A 71 474 71 HOH HOH . C 3 HOH A 72 475 72 HOH HOH . C 3 HOH A 73 476 73 HOH HOH . C 3 HOH A 74 477 74 HOH HOH . C 3 HOH A 75 478 75 HOH HOH . C 3 HOH A 76 479 76 HOH HOH . C 3 HOH A 77 480 77 HOH HOH . C 3 HOH A 78 481 78 HOH HOH . C 3 HOH A 79 482 79 HOH HOH . C 3 HOH A 80 483 80 HOH HOH . C 3 HOH A 81 484 81 HOH HOH . C 3 HOH A 82 485 82 HOH HOH . C 3 HOH A 83 486 83 HOH HOH . C 3 HOH A 84 487 84 HOH HOH . C 3 HOH A 85 488 85 HOH HOH . C 3 HOH A 86 489 86 HOH HOH . C 3 HOH A 87 490 87 HOH HOH . C 3 HOH A 88 491 88 HOH HOH . C 3 HOH A 89 492 89 HOH HOH . C 3 HOH A 90 493 90 HOH HOH . C 3 HOH A 91 494 91 HOH HOH . C 3 HOH A 92 495 92 HOH HOH . C 3 HOH A 93 496 93 HOH HOH . C 3 HOH A 94 497 94 HOH HOH . C 3 HOH A 95 498 95 HOH HOH . C 3 HOH A 96 499 96 HOH HOH . C 3 HOH A 97 500 97 HOH HOH . C 3 HOH A 98 501 98 HOH HOH . C 3 HOH A 99 502 99 HOH HOH . C 3 HOH A 100 503 100 HOH HOH . C 3 HOH A 101 504 101 HOH HOH . C 3 HOH A 102 505 102 HOH HOH . C 3 HOH A 103 506 103 HOH HOH . C 3 HOH A 104 507 104 HOH HOH . C 3 HOH A 105 508 105 HOH HOH . C 3 HOH A 106 509 106 HOH HOH . C 3 HOH A 107 510 107 HOH HOH . C 3 HOH A 108 511 108 HOH HOH . C 3 HOH A 109 512 109 HOH HOH . C 3 HOH A 110 513 110 HOH HOH . C 3 HOH A 111 514 111 HOH HOH . C 3 HOH A 112 515 112 HOH HOH . C 3 HOH A 113 516 113 HOH HOH . C 3 HOH A 114 517 114 HOH HOH . C 3 HOH A 115 518 115 HOH HOH . C 3 HOH A 116 519 116 HOH HOH . C 3 HOH A 117 520 117 HOH HOH . C 3 HOH A 118 521 118 HOH HOH . C 3 HOH A 119 522 119 HOH HOH . C 3 HOH A 120 523 120 HOH HOH . C 3 HOH A 121 524 121 HOH HOH . C 3 HOH A 122 525 122 HOH HOH . C 3 HOH A 123 526 123 HOH HOH . C 3 HOH A 124 527 124 HOH HOH . C 3 HOH A 125 528 125 HOH HOH . C 3 HOH A 126 529 126 HOH HOH . C 3 HOH A 127 530 127 HOH HOH . C 3 HOH A 128 531 128 HOH HOH . C 3 HOH A 129 532 129 HOH HOH . C 3 HOH A 130 533 130 HOH HOH . C 3 HOH A 131 534 131 HOH HOH . C 3 HOH A 132 535 132 HOH HOH . C 3 HOH A 133 536 133 HOH HOH . C 3 HOH A 134 537 134 HOH HOH . C 3 HOH A 135 538 135 HOH HOH . C 3 HOH A 136 539 136 HOH HOH . C 3 HOH A 137 540 137 HOH HOH . C 3 HOH A 138 541 138 HOH HOH . C 3 HOH A 139 542 139 HOH HOH . C 3 HOH A 140 543 140 HOH HOH . C 3 HOH A 141 544 141 HOH HOH . C 3 HOH A 142 545 142 HOH HOH . C 3 HOH A 143 546 143 HOH HOH . C 3 HOH A 144 547 144 HOH HOH . C 3 HOH A 145 548 145 HOH HOH . C 3 HOH A 146 549 146 HOH HOH . C 3 HOH A 147 550 147 HOH HOH . C 3 HOH A 148 551 148 HOH HOH . C 3 HOH A 149 552 149 HOH HOH . C 3 HOH A 150 553 150 HOH HOH . C 3 HOH A 151 554 151 HOH HOH . C 3 HOH A 152 555 152 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 14.919 45.485 54.136 1 92.93 ? PB ADP 403 A 1 HETATM 2 O O1B ADP . . . B 2 15.07 46.575 53.042 1 91.56 ? O1B ADP 403 A 1 HETATM 3 O O2B ADP . . . B 2 15.351 45.851 55.699 1 92.83 ? O2B ADP 403 A 1 HETATM 4 O O3B ADP . . . B 2 13.388 45.003 54.12 1 93.42 ? O3B ADP 403 A 1 HETATM 5 P PA ADP . . . B 2 16.161 42.739 54.701 1 84.67 ? PA ADP 403 A 1 HETATM 6 O O1A ADP . . . B 2 15.213 41.678 53.987 1 84.57 ? O1A ADP 403 A 1 HETATM 7 O O2A ADP . . . B 2 15.798 42.928 56.186 1 84.39 ? O2A ADP 403 A 1 HETATM 8 O O3A ADP . . . B 2 16.061 44.192 53.942 1 87.55 ? O3A ADP 403 A 1 HETATM 9 O O5' ADP . . . B 2 17.766 42.296 54.821 1 81.55 ? O5' ADP 403 A 1 HETATM 10 C C5' ADP . . . B 2 18.244 41.072 55.541 1 77.85 ? C5' ADP 403 A 1 HETATM 11 C C4' ADP . . . B 2 19.721 41.073 55.417 1 76.57 ? C4' ADP 403 A 1 HETATM 12 O O4' ADP . . . B 2 20.641 42.185 55.755 1 76.04 ? O4' ADP 403 A 1 HETATM 13 C C3' ADP . . . B 2 20.332 39.822 56.164 1 75.16 ? C3' ADP 403 A 1 HETATM 14 O O3' ADP . . . B 2 21.206 38.994 55.26 1 74.19 ? O3' ADP 403 A 1 HETATM 15 C C2' ADP . . . B 2 21.103 40.37 57.245 1 74.36 ? C2' ADP 403 A 1 HETATM 16 O O2' ADP . . . B 2 22.069 39.447 57.833 1 74.75 ? O2' ADP 403 A 1 HETATM 17 C C1' ADP . . . B 2 21.646 41.611 56.588 1 73.84 ? C1' ADP 403 A 1 HETATM 18 N N9 ADP . . . B 2 22.104 42.501 57.662 1 71.85 ? N9 ADP 403 A 1 HETATM 19 C C8 ADP . . . B 2 21.35 43.128 58.669 1 71.24 ? C8 ADP 403 A 1 HETATM 20 N N7 ADP . . . B 2 22.207 43.857 59.432 1 71.27 ? N7 ADP 403 A 1 HETATM 21 C C5 ADP . . . B 2 23.485 43.707 58.93 1 70.71 ? C5 ADP 403 A 1 HETATM 22 C C6 ADP . . . B 2 24.845 44.196 59.25 1 70.48 ? C6 ADP 403 A 1 HETATM 23 N N6 ADP . . . B 2 25.014 45.056 60.356 1 69.66 ? N6 ADP 403 A 1 HETATM 24 N N1 ADP . . . B 2 26.004 43.803 58.448 1 69.28 ? N1 ADP 403 A 1 HETATM 25 C C2 ADP . . . B 2 25.887 42.935 57.33 1 68.84 ? C2 ADP 403 A 1 HETATM 26 N N3 ADP . . . B 2 24.573 42.473 57.037 1 69.82 ? N3 ADP 403 A 1 HETATM 27 C C4 ADP . . . B 2 23.398 42.822 57.781 1 70.43 ? C4 ADP 403 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #