data_3SMS # _model_server_result.job_id 276MvzVLFs5fb-3K_vBt9Q _model_server_result.datetime_utc '2024-10-11 17:32:09' _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 3sms # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":373}' # _entry.id 3SMS # _exptl.entry_id 3SMS _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 3SMS _cell.length_a 99.63 _cell.length_b 99.63 _cell.length_c 69.62 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SMS _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 _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_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,O _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' 5_554 x-y,-y,-z-1/3 1 0 0 0 -1 0 0 0 -1 0 0 -23.206667 # _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 3SMS _atom_sites.fract_transf_matrix[1][1] 0.010037 _atom_sites.fract_transf_matrix[1][2] 0.005795 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01159 _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] 0.014364 _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 1 373 1 ADP ADP . C 3 RNH A 1 374 1 RNH RNH . D 4 UNX A 1 2892 2892 UNX UNX . E 4 UNX A 1 2893 2893 UNX UNX . F 4 UNX A 1 2894 2894 UNX UNX . G 4 UNX A 1 2895 2895 UNX UNX . H 4 UNX A 1 2896 2896 UNX UNX . I 4 UNX A 1 2897 2897 UNX UNX . J 4 UNX A 1 2898 2898 UNX UNX . K 4 UNX A 1 2899 2899 UNX UNX . L 4 UNX A 1 2900 2900 UNX UNX . M 4 UNX A 1 2901 2901 UNX UNX . N 4 UNX A 1 2902 2902 UNX UNX . O 5 HOH A 1 375 4 HOH HOH . O 5 HOH A 2 376 5 HOH HOH . O 5 HOH A 3 377 8 HOH HOH . O 5 HOH A 4 378 10 HOH HOH . O 5 HOH A 5 379 11 HOH HOH . O 5 HOH A 6 380 13 HOH HOH . O 5 HOH A 7 381 15 HOH HOH . O 5 HOH A 8 382 16 HOH HOH . O 5 HOH A 9 383 17 HOH HOH . O 5 HOH A 10 384 18 HOH HOH . O 5 HOH A 11 385 20 HOH HOH . O 5 HOH A 12 386 24 HOH HOH . O 5 HOH A 13 387 26 HOH HOH . O 5 HOH A 14 388 27 HOH HOH . O 5 HOH A 15 389 28 HOH HOH . O 5 HOH A 16 390 31 HOH HOH . O 5 HOH A 17 391 33 HOH HOH . O 5 HOH A 18 392 34 HOH HOH . O 5 HOH A 19 393 35 HOH HOH . O 5 HOH A 20 394 38 HOH HOH . O 5 HOH A 21 395 40 HOH HOH . O 5 HOH A 22 396 43 HOH HOH . O 5 HOH A 23 397 44 HOH HOH . O 5 HOH A 24 398 45 HOH HOH . O 5 HOH A 25 399 48 HOH HOH . O 5 HOH A 26 400 49 HOH HOH . O 5 HOH A 27 401 51 HOH HOH . O 5 HOH A 28 402 52 HOH HOH . O 5 HOH A 29 403 53 HOH HOH . O 5 HOH A 30 404 57 HOH HOH . O 5 HOH A 31 405 61 HOH HOH . O 5 HOH A 32 406 62 HOH HOH . O 5 HOH A 33 407 64 HOH HOH . O 5 HOH A 34 408 67 HOH HOH . O 5 HOH A 35 409 69 HOH HOH . O 5 HOH A 36 410 75 HOH HOH . O 5 HOH A 37 411 76 HOH HOH . O 5 HOH A 38 412 77 HOH HOH . O 5 HOH A 39 413 78 HOH HOH . O 5 HOH A 40 414 80 HOH HOH . O 5 HOH A 41 415 81 HOH HOH . O 5 HOH A 42 416 84 HOH HOH . O 5 HOH A 43 417 86 HOH HOH . O 5 HOH A 44 418 87 HOH HOH . O 5 HOH A 45 419 89 HOH HOH . O 5 HOH A 46 420 90 HOH HOH . O 5 HOH A 47 421 92 HOH HOH . O 5 HOH A 48 422 100 HOH HOH . O 5 HOH A 49 423 103 HOH HOH . O 5 HOH A 50 424 105 HOH HOH . O 5 HOH A 51 425 106 HOH HOH . O 5 HOH A 52 426 107 HOH HOH . O 5 HOH A 53 427 108 HOH HOH . O 5 HOH A 54 428 109 HOH HOH . O 5 HOH A 55 429 111 HOH HOH . O 5 HOH A 56 430 112 HOH HOH . O 5 HOH A 57 431 113 HOH HOH . O 5 HOH A 58 432 116 HOH HOH . O 5 HOH A 59 433 117 HOH HOH . O 5 HOH A 60 434 118 HOH HOH . O 5 HOH A 61 435 119 HOH HOH . O 5 HOH A 62 436 120 HOH HOH . O 5 HOH A 63 437 122 HOH HOH . O 5 HOH A 64 438 124 HOH HOH . O 5 HOH A 65 439 125 HOH HOH . O 5 HOH A 66 440 126 HOH HOH . O 5 HOH A 67 441 127 HOH HOH . O 5 HOH A 68 442 130 HOH HOH . O 5 HOH A 69 443 131 HOH HOH . O 5 HOH A 70 444 133 HOH HOH . O 5 HOH A 71 445 134 HOH HOH . O 5 HOH A 72 446 135 HOH HOH . O 5 HOH A 73 447 138 HOH HOH . O 5 HOH A 74 448 139 HOH HOH . O 5 HOH A 75 449 140 HOH HOH . O 5 HOH A 76 450 142 HOH HOH . O 5 HOH A 77 451 145 HOH HOH . O 5 HOH A 78 452 152 HOH HOH . O 5 HOH A 79 453 153 HOH HOH . O 5 HOH A 80 454 160 HOH HOH . O 5 HOH A 81 455 161 HOH HOH . O 5 HOH A 82 456 162 HOH HOH . O 5 HOH A 83 457 163 HOH HOH . O 5 HOH A 84 458 164 HOH HOH . O 5 HOH A 85 459 167 HOH HOH . O 5 HOH A 86 460 170 HOH HOH . O 5 HOH A 87 461 173 HOH HOH . O 5 HOH A 88 462 177 HOH HOH . O 5 HOH A 89 463 186 HOH HOH . O 5 HOH A 90 464 187 HOH HOH . O 5 HOH A 91 465 188 HOH HOH . O 5 HOH A 92 466 190 HOH HOH . O 5 HOH A 93 467 194 HOH HOH . O 5 HOH A 94 468 195 HOH HOH . O 5 HOH A 95 469 198 HOH HOH . O 5 HOH A 96 470 199 HOH HOH . O 5 HOH A 97 471 200 HOH HOH . O 5 HOH A 98 472 201 HOH HOH . O 5 HOH A 99 473 202 HOH HOH . O 5 HOH A 100 474 203 HOH HOH . O 5 HOH A 101 475 204 HOH HOH . O 5 HOH A 102 476 205 HOH HOH . O 5 HOH A 103 477 206 HOH HOH . O 5 HOH A 104 478 207 HOH HOH . O 5 HOH A 105 479 208 HOH HOH . O 5 HOH A 106 480 209 HOH HOH . O 5 HOH A 107 481 210 HOH HOH . O 5 HOH A 108 482 211 HOH HOH . O 5 HOH A 109 483 213 HOH HOH . O 5 HOH A 110 484 214 HOH HOH . O 5 HOH A 111 485 215 HOH HOH . O 5 HOH A 112 486 216 HOH HOH . O 5 HOH A 113 487 217 HOH HOH . O 5 HOH A 114 488 218 HOH HOH . O 5 HOH A 115 489 219 HOH HOH . O 5 HOH A 116 490 220 HOH HOH . O 5 HOH A 117 491 221 HOH HOH . O 5 HOH A 118 492 222 HOH HOH . O 5 HOH A 119 493 223 HOH HOH . O 5 HOH A 120 494 224 HOH HOH . O 5 HOH A 121 495 225 HOH HOH . O 5 HOH A 122 496 226 HOH HOH . O 5 HOH A 123 497 227 HOH HOH . O 5 HOH A 124 498 228 HOH HOH . O 5 HOH A 125 499 229 HOH HOH . O 5 HOH A 126 500 230 HOH HOH . O 5 HOH A 127 501 231 HOH HOH . O 5 HOH A 128 502 232 HOH HOH . O 5 HOH A 129 503 233 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 27.306 13.593 0.324 1 13.61 ? PB ADP 373 A 1 HETATM 2 O O1B ADP . . . B 2 25.928 13.951 0.837 1 14.36 ? O1B ADP 373 A 1 HETATM 3 O O2B ADP . . . B 2 27.321 13.261 -1.15 1 12.26 ? O2B ADP 373 A 1 HETATM 4 O O3B ADP . . . B 2 28.422 14.524 0.752 1 11.53 ? O3B ADP 373 A 1 HETATM 5 P PA ADP . . . B 2 27.425 11.511 2.435 1 12.72 ? PA ADP 373 A 1 HETATM 6 O O1A ADP . . . B 2 26.646 12.372 3.405 1 13.27 ? O1A ADP 373 A 1 HETATM 7 O O2A ADP . . . B 2 28.736 10.916 2.838 1 11.91 ? O2A ADP 373 A 1 HETATM 8 O O3A ADP . . . B 2 27.637 12.152 0.983 1 10.72 ? O3A ADP 373 A 1 HETATM 9 O O5' ADP . . . B 2 26.527 10.217 2.087 1 13.28 ? O5' ADP 373 A 1 HETATM 10 C C5' ADP . . . B 2 25.261 10.277 1.428 1 13.24 ? C5' ADP 373 A 1 HETATM 11 C C4' ADP . . . B 2 24.711 8.85 1.294 1 13.07 ? C4' ADP 373 A 1 HETATM 12 O O4' ADP . . . B 2 24.407 8.312 2.56 1 12.45 ? O4' ADP 373 A 1 HETATM 13 C C3' ADP . . . B 2 23.406 8.725 0.544 1 14.82 ? C3' ADP 373 A 1 HETATM 14 O O3' ADP . . . B 2 23.626 8.638 -0.85 1 13.9 ? O3' ADP 373 A 1 HETATM 15 C C2' ADP . . . B 2 22.769 7.475 1.13 1 15.16 ? C2' ADP 373 A 1 HETATM 16 O O2' ADP . . . B 2 23.176 6.312 0.414 1 14.51 ? O2' ADP 373 A 1 HETATM 17 C C1' ADP . . . B 2 23.319 7.385 2.537 1 13.42 ? C1' ADP 373 A 1 HETATM 18 N N9 ADP . . . B 2 22.442 7.782 3.66 1 14.71 ? N9 ADP 373 A 1 HETATM 19 C C8 ADP . . . B 2 22.584 7.297 4.911 1 16.42 ? C8 ADP 373 A 1 HETATM 20 N N7 ADP . . . B 2 21.71 7.855 5.767 1 16.16 ? N7 ADP 373 A 1 HETATM 21 C C5 ADP . . . B 2 20.999 8.734 5.061 1 18.19 ? C5 ADP 373 A 1 HETATM 22 C C6 ADP . . . B 2 19.92 9.673 5.383 1 17.11 ? C6 ADP 373 A 1 HETATM 23 N N6 ADP . . . B 2 19.438 9.707 6.637 1 19.75 ? N6 ADP 373 A 1 HETATM 24 N N1 ADP . . . B 2 19.415 10.429 4.394 1 18.64 ? N1 ADP 373 A 1 HETATM 25 C C2 ADP . . . B 2 19.901 10.368 3.133 1 17.72 ? C2 ADP 373 A 1 HETATM 26 N N3 ADP . . . B 2 20.9 9.531 2.77 1 16.36 ? N3 ADP 373 A 1 HETATM 27 C C4 ADP . . . B 2 21.474 8.699 3.675 1 17.2 ? C4 ADP 373 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #