data_1IQP # _model_server_result.job_id mAY3BbUDP-0gkoqBLHLyMA _model_server_result.datetime_utc '2024-11-26 02:53:22' _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 1iqp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":404}' # _entry.id 1IQP # _exptl.entry_id 1IQP _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 4 _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 1IQP _cell.length_a 98.361 _cell.length_b 105.608 _cell.length_c 316.898 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1IQP _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,H,I,J,K,L,M,N,O,P _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N 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 1IQP _atom_sites.fract_transf_matrix[1][1] 0.010167 _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] 0.009469 _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] 0.003156 _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 G 2 ADP A 1 401 401 ADP ADP . H 2 ADP B 1 402 402 ADP ADP . I 2 ADP C 1 403 403 ADP ADP . J 2 ADP E 1 404 404 ADP ADP . K 3 HOH A 1 402 1 HOH HOH . K 3 HOH A 2 403 2 HOH HOH . K 3 HOH A 3 404 12 HOH HOH . K 3 HOH A 4 405 16 HOH HOH . K 3 HOH A 5 406 17 HOH HOH . K 3 HOH A 6 407 19 HOH HOH . K 3 HOH A 7 408 21 HOH HOH . K 3 HOH A 8 409 23 HOH HOH . K 3 HOH A 9 410 27 HOH HOH . K 3 HOH A 10 411 28 HOH HOH . K 3 HOH A 11 412 29 HOH HOH . K 3 HOH A 12 413 31 HOH HOH . K 3 HOH A 13 414 35 HOH HOH . K 3 HOH A 14 415 36 HOH HOH . K 3 HOH A 15 416 41 HOH HOH . K 3 HOH A 16 417 43 HOH HOH . K 3 HOH A 17 418 44 HOH HOH . K 3 HOH A 18 419 48 HOH HOH . K 3 HOH A 19 420 49 HOH HOH . K 3 HOH A 20 421 50 HOH HOH . K 3 HOH A 21 422 55 HOH HOH . K 3 HOH A 22 423 56 HOH HOH . K 3 HOH A 23 424 57 HOH HOH . K 3 HOH A 24 425 58 HOH HOH . K 3 HOH A 25 426 66 HOH HOH . K 3 HOH A 26 427 68 HOH HOH . K 3 HOH A 27 428 74 HOH HOH . K 3 HOH A 28 429 75 HOH HOH . K 3 HOH A 29 430 81 HOH HOH . K 3 HOH A 30 431 86 HOH HOH . K 3 HOH A 31 432 91 HOH HOH . K 3 HOH A 32 433 92 HOH HOH . K 3 HOH A 33 434 99 HOH HOH . K 3 HOH A 34 435 100 HOH HOH . K 3 HOH A 35 436 105 HOH HOH . K 3 HOH A 36 437 107 HOH HOH . K 3 HOH A 37 438 110 HOH HOH . K 3 HOH A 38 439 112 HOH HOH . K 3 HOH A 39 440 114 HOH HOH . K 3 HOH A 40 441 120 HOH HOH . K 3 HOH A 41 442 121 HOH HOH . K 3 HOH A 42 443 123 HOH HOH . K 3 HOH A 43 444 124 HOH HOH . K 3 HOH A 44 445 130 HOH HOH . K 3 HOH A 45 446 137 HOH HOH . K 3 HOH A 46 447 138 HOH HOH . K 3 HOH A 47 448 139 HOH HOH . K 3 HOH A 48 449 141 HOH HOH . K 3 HOH A 49 450 153 HOH HOH . K 3 HOH A 50 451 156 HOH HOH . K 3 HOH A 51 452 159 HOH HOH . K 3 HOH A 52 453 160 HOH HOH . K 3 HOH A 53 454 161 HOH HOH . K 3 HOH A 54 455 167 HOH HOH . K 3 HOH A 55 456 172 HOH HOH . K 3 HOH A 56 457 175 HOH HOH . K 3 HOH A 57 458 183 HOH HOH . K 3 HOH A 58 459 184 HOH HOH . K 3 HOH A 59 460 185 HOH HOH . K 3 HOH A 60 461 190 HOH HOH . K 3 HOH A 61 462 191 HOH HOH . K 3 HOH A 62 463 192 HOH HOH . K 3 HOH A 63 464 199 HOH HOH . K 3 HOH A 64 465 203 HOH HOH . K 3 HOH A 65 466 205 HOH HOH . K 3 HOH A 66 467 211 HOH HOH . K 3 HOH A 67 468 212 HOH HOH . K 3 HOH A 68 469 215 HOH HOH . K 3 HOH A 69 470 216 HOH HOH . K 3 HOH A 70 471 219 HOH HOH . K 3 HOH A 71 472 223 HOH HOH . K 3 HOH A 72 473 228 HOH HOH . K 3 HOH A 73 474 229 HOH HOH . K 3 HOH A 74 475 233 HOH HOH . K 3 HOH A 75 476 236 HOH HOH . K 3 HOH A 76 477 237 HOH HOH . K 3 HOH A 77 478 241 HOH HOH . L 3 HOH B 1 403 3 HOH HOH . L 3 HOH B 2 404 5 HOH HOH . L 3 HOH B 3 405 7 HOH HOH . L 3 HOH B 4 406 10 HOH HOH . L 3 HOH B 5 407 20 HOH HOH . L 3 HOH B 6 408 22 HOH HOH . L 3 HOH B 7 409 24 HOH HOH . L 3 HOH B 8 410 25 HOH HOH . L 3 HOH B 9 411 34 HOH HOH . L 3 HOH B 10 412 38 HOH HOH . L 3 HOH B 11 413 40 HOH HOH . L 3 HOH B 12 414 42 HOH HOH . L 3 HOH B 13 415 51 HOH HOH . L 3 HOH B 14 416 53 HOH HOH . L 3 HOH B 15 417 54 HOH HOH . L 3 HOH B 16 418 61 HOH HOH . L 3 HOH B 17 419 62 HOH HOH . L 3 HOH B 18 420 64 HOH HOH . L 3 HOH B 19 421 69 HOH HOH . L 3 HOH B 20 422 73 HOH HOH . L 3 HOH B 21 423 80 HOH HOH . L 3 HOH B 22 424 85 HOH HOH . L 3 HOH B 23 425 87 HOH HOH . L 3 HOH B 24 426 88 HOH HOH . L 3 HOH B 25 427 90 HOH HOH . L 3 HOH B 26 428 93 HOH HOH . L 3 HOH B 27 429 95 HOH HOH . L 3 HOH B 28 430 97 HOH HOH . L 3 HOH B 29 431 103 HOH HOH . L 3 HOH B 30 432 104 HOH HOH . L 3 HOH B 31 433 106 HOH HOH . L 3 HOH B 32 434 108 HOH HOH . L 3 HOH B 33 435 116 HOH HOH . L 3 HOH B 34 436 117 HOH HOH . L 3 HOH B 35 437 118 HOH HOH . L 3 HOH B 36 438 119 HOH HOH . L 3 HOH B 37 439 125 HOH HOH . L 3 HOH B 38 440 126 HOH HOH . L 3 HOH B 39 441 127 HOH HOH . L 3 HOH B 40 442 131 HOH HOH . L 3 HOH B 41 443 134 HOH HOH . L 3 HOH B 42 444 136 HOH HOH . L 3 HOH B 43 445 144 HOH HOH . L 3 HOH B 44 446 145 HOH HOH . L 3 HOH B 45 447 151 HOH HOH . L 3 HOH B 46 448 154 HOH HOH . L 3 HOH B 47 449 157 HOH HOH . L 3 HOH B 48 450 162 HOH HOH . L 3 HOH B 49 451 166 HOH HOH . L 3 HOH B 50 452 177 HOH HOH . L 3 HOH B 51 453 182 HOH HOH . L 3 HOH B 52 454 187 HOH HOH . L 3 HOH B 53 455 197 HOH HOH . L 3 HOH B 54 456 213 HOH HOH . L 3 HOH B 55 457 220 HOH HOH . L 3 HOH B 56 458 225 HOH HOH . L 3 HOH B 57 459 227 HOH HOH . L 3 HOH B 58 460 230 HOH HOH . L 3 HOH B 59 461 238 HOH HOH . L 3 HOH B 60 462 244 HOH HOH . M 3 HOH C 1 404 8 HOH HOH . M 3 HOH C 2 405 9 HOH HOH . M 3 HOH C 3 406 13 HOH HOH . M 3 HOH C 4 407 14 HOH HOH . M 3 HOH C 5 408 63 HOH HOH . M 3 HOH C 6 409 65 HOH HOH . M 3 HOH C 7 410 67 HOH HOH . M 3 HOH C 8 411 72 HOH HOH . M 3 HOH C 9 412 101 HOH HOH . M 3 HOH C 10 413 109 HOH HOH . M 3 HOH C 11 414 133 HOH HOH . M 3 HOH C 12 415 140 HOH HOH . M 3 HOH C 13 416 149 HOH HOH . M 3 HOH C 14 417 152 HOH HOH . M 3 HOH C 15 418 155 HOH HOH . M 3 HOH C 16 419 168 HOH HOH . M 3 HOH C 17 420 173 HOH HOH . M 3 HOH C 18 421 186 HOH HOH . M 3 HOH C 19 422 207 HOH HOH . M 3 HOH C 20 423 214 HOH HOH . M 3 HOH C 21 424 217 HOH HOH . M 3 HOH C 22 425 218 HOH HOH . M 3 HOH C 23 426 234 HOH HOH . M 3 HOH C 24 427 240 HOH HOH . M 3 HOH C 25 428 243 HOH HOH . N 3 HOH D 1 328 6 HOH HOH . N 3 HOH D 2 329 45 HOH HOH . N 3 HOH D 3 330 46 HOH HOH . N 3 HOH D 4 331 59 HOH HOH . N 3 HOH D 5 332 71 HOH HOH . N 3 HOH D 6 333 94 HOH HOH . N 3 HOH D 7 334 143 HOH HOH . N 3 HOH D 8 335 150 HOH HOH . N 3 HOH D 9 336 164 HOH HOH . N 3 HOH D 10 337 181 HOH HOH . N 3 HOH D 11 338 224 HOH HOH . N 3 HOH D 12 339 235 HOH HOH . N 3 HOH D 13 340 239 HOH HOH . O 3 HOH E 1 405 15 HOH HOH . O 3 HOH E 2 406 30 HOH HOH . O 3 HOH E 3 407 32 HOH HOH . O 3 HOH E 4 408 47 HOH HOH . O 3 HOH E 5 409 52 HOH HOH . O 3 HOH E 6 410 70 HOH HOH . O 3 HOH E 7 411 76 HOH HOH . O 3 HOH E 8 412 77 HOH HOH . O 3 HOH E 9 413 79 HOH HOH . O 3 HOH E 10 414 82 HOH HOH . O 3 HOH E 11 415 83 HOH HOH . O 3 HOH E 12 416 84 HOH HOH . O 3 HOH E 13 417 96 HOH HOH . O 3 HOH E 14 418 111 HOH HOH . O 3 HOH E 15 419 113 HOH HOH . O 3 HOH E 16 420 122 HOH HOH . O 3 HOH E 17 421 132 HOH HOH . O 3 HOH E 18 422 148 HOH HOH . O 3 HOH E 19 423 170 HOH HOH . O 3 HOH E 20 424 176 HOH HOH . O 3 HOH E 21 425 179 HOH HOH . O 3 HOH E 22 426 180 HOH HOH . O 3 HOH E 23 427 189 HOH HOH . O 3 HOH E 24 428 193 HOH HOH . O 3 HOH E 25 429 194 HOH HOH . O 3 HOH E 26 430 198 HOH HOH . O 3 HOH E 27 431 200 HOH HOH . O 3 HOH E 28 432 201 HOH HOH . O 3 HOH E 29 433 209 HOH HOH . O 3 HOH E 30 434 226 HOH HOH . O 3 HOH E 31 435 231 HOH HOH . O 3 HOH E 32 436 232 HOH HOH . O 3 HOH E 33 437 242 HOH HOH . P 3 HOH F 1 328 4 HOH HOH . P 3 HOH F 2 329 11 HOH HOH . P 3 HOH F 3 330 18 HOH HOH . P 3 HOH F 4 331 26 HOH HOH . P 3 HOH F 5 332 33 HOH HOH . P 3 HOH F 6 333 37 HOH HOH . P 3 HOH F 7 334 39 HOH HOH . P 3 HOH F 8 335 60 HOH HOH . P 3 HOH F 9 336 78 HOH HOH . P 3 HOH F 10 337 89 HOH HOH . P 3 HOH F 11 338 98 HOH HOH . P 3 HOH F 12 339 102 HOH HOH . P 3 HOH F 13 340 115 HOH HOH . P 3 HOH F 14 341 128 HOH HOH . P 3 HOH F 15 342 129 HOH HOH . P 3 HOH F 16 343 135 HOH HOH . P 3 HOH F 17 344 142 HOH HOH . P 3 HOH F 18 345 146 HOH HOH . P 3 HOH F 19 346 147 HOH HOH . P 3 HOH F 20 347 158 HOH HOH . P 3 HOH F 21 348 163 HOH HOH . P 3 HOH F 22 349 165 HOH HOH . P 3 HOH F 23 350 169 HOH HOH . P 3 HOH F 24 351 171 HOH HOH . P 3 HOH F 25 352 174 HOH HOH . P 3 HOH F 26 353 178 HOH HOH . P 3 HOH F 27 354 188 HOH HOH . P 3 HOH F 28 355 195 HOH HOH . P 3 HOH F 29 356 196 HOH HOH . P 3 HOH F 30 357 202 HOH HOH . P 3 HOH F 31 358 204 HOH HOH . P 3 HOH F 32 359 206 HOH HOH . P 3 HOH F 33 360 208 HOH HOH . P 3 HOH F 34 361 210 HOH HOH . P 3 HOH F 35 362 221 HOH HOH . P 3 HOH F 36 363 222 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 . . . J 2 46.901 4.483 216.409 1 112.86 ? PB ADP 404 E 1 HETATM 2 O O1B ADP . . . J 2 47.866 3.394 216.045 1 112.77 ? O1B ADP 404 E 1 HETATM 3 O O2B ADP . . . J 2 47.195 5.169 217.78 1 113.81 ? O2B ADP 404 E 1 HETATM 4 O O3B ADP . . . J 2 46.765 5.534 215.321 1 113.26 ? O3B ADP 404 E 1 HETATM 5 P PA ADP . . . J 2 44.604 3.367 217.94 1 111.52 ? PA ADP 404 E 1 HETATM 6 O O1A ADP . . . J 2 45.531 2.466 218.675 1 111.73 ? O1A ADP 404 E 1 HETATM 7 O O2A ADP . . . J 2 43.33 2.823 217.512 1 111.22 ? O2A ADP 404 E 1 HETATM 8 O O3A ADP . . . J 2 45.464 3.854 216.61 1 112.6 ? O3A ADP 404 E 1 HETATM 9 O O5' ADP . . . J 2 44.379 4.705 218.848 1 110.74 ? O5' ADP 404 E 1 HETATM 10 C C5' ADP . . . J 2 43.486 5.782 218.407 1 109.47 ? C5' ADP 404 E 1 HETATM 11 C C4' ADP . . . J 2 42.197 5.952 219.245 1 108.83 ? C4' ADP 404 E 1 HETATM 12 O O4' ADP . . . J 2 41.049 5.431 218.441 1 108 ? O4' ADP 404 E 1 HETATM 13 C C3' ADP . . . J 2 42.115 5.18 220.571 1 108.71 ? C3' ADP 404 E 1 HETATM 14 O O3' ADP . . . J 2 42.424 6.074 221.664 1 108.53 ? O3' ADP 404 E 1 HETATM 15 C C2' ADP . . . J 2 40.589 4.73 220.706 1 108.19 ? C2' ADP 404 E 1 HETATM 16 O O2' ADP . . . J 2 39.756 5.688 221.453 1 107.23 ? O2' ADP 404 E 1 HETATM 17 C C1' ADP . . . J 2 40.081 4.722 219.238 1 107.89 ? C1' ADP 404 E 1 HETATM 18 N N9 ADP . . . J 2 39.879 3.297 218.632 1 107.66 ? N9 ADP 404 E 1 HETATM 19 C C8 ADP . . . J 2 40.516 2.808 217.579 1 107.76 ? C8 ADP 404 E 1 HETATM 20 N N7 ADP . . . J 2 40.178 1.615 217.272 1 107.64 ? N7 ADP 404 E 1 HETATM 21 C C5 ADP . . . J 2 39.218 1.262 218.202 1 107.25 ? C5 ADP 404 E 1 HETATM 22 C C6 ADP . . . J 2 38.419 0.067 218.431 1 106.99 ? C6 ADP 404 E 1 HETATM 23 N N6 ADP . . . J 2 38.506 -1.056 217.647 1 107.2 ? N6 ADP 404 E 1 HETATM 24 N N1 ADP . . . J 2 37.547 0.073 219.465 1 106.83 ? N1 ADP 404 E 1 HETATM 25 C C2 ADP . . . J 2 37.453 1.155 220.228 1 106.96 ? C2 ADP 404 E 1 HETATM 26 N N3 ADP . . . J 2 38.148 2.313 220.105 1 107.13 ? N3 ADP 404 E 1 HETATM 27 C C4 ADP . . . J 2 39.018 2.305 219.068 1 107.35 ? C4 ADP 404 E 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #