data_4KXM # _model_server_result.job_id Zpzi1SdYv1tdrHJJ6IsHLA _model_server_result.datetime_utc '2024-11-15 16:47:46' _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 4kxm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":201}' # _entry.id 4KXM # _exptl.entry_id 4KXM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 417.354 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE" _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 101.58 _cell.angle_gamma 90 _cell.entry_id 4KXM _cell.length_a 32.146 _cell.length_b 96.568 _cell.length_c 79.034 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4KXM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,I,J 1 1 C,D,G,H,K,L 2 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 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C15 H24 N5 O7 P' _chem_comp.formula_weight 417.354 _chem_comp.id 6IA _chem_comp.mon_nstd_flag n _chem_comp.name "N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE" _chem_comp.type 'rna linking' _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 OP3 P 6IA sing 1 n n OP3 HOP3 6IA sing 2 n n P OP1 6IA doub 3 n n P OP2 6IA sing 4 n n P O5' 6IA sing 5 n n OP2 HOP2 6IA sing 6 n n O5' C5' 6IA sing 7 n n C5' C4' 6IA sing 8 n n C5' H5' 6IA sing 9 n n C5' "H5''" 6IA sing 10 n n C4' O4' 6IA sing 11 n n C4' C3' 6IA sing 12 n n C4' H4' 6IA sing 13 n n O4' C1' 6IA sing 14 n n C3' O3' 6IA sing 15 n n C3' C2' 6IA sing 16 n n C3' H3' 6IA sing 17 n n O3' HO3' 6IA sing 18 n n C2' O2' 6IA sing 19 n n C2' C1' 6IA sing 20 n n C2' H2' 6IA sing 21 n n O2' HO2' 6IA sing 22 n n C1' N9 6IA sing 23 n n C1' H1' 6IA sing 24 n n N9 C8 6IA sing 25 n y N9 C4 6IA sing 26 n y C8 N7 6IA doub 27 n y C8 H8 6IA sing 28 n n N7 C5 6IA sing 29 n y C5 C6 6IA sing 30 n y C5 C4 6IA doub 31 n y C6 N6 6IA sing 32 n n C6 N1 6IA doub 33 n y N6 C12 6IA sing 34 n n N6 HN6 6IA sing 35 n n N1 C2 6IA sing 36 n y C2 N3 6IA doub 37 n y C2 H2 6IA sing 38 n n N3 C4 6IA sing 39 n y C12 C13 6IA sing 40 n n C12 H121 6IA sing 41 n n C12 H122 6IA sing 42 n n C13 C14 6IA sing 43 n n C13 H131 6IA sing 44 n n C13 H132 6IA sing 45 n n C14 C15 6IA sing 46 n n C14 C16 6IA sing 47 n n C14 H14 6IA sing 48 n n C15 H151 6IA sing 49 n n C15 H152 6IA sing 50 n n C15 H153 6IA sing 51 n n C16 H161 6IA sing 52 n n C16 H162 6IA sing 53 n n C16 H163 6IA sing 54 n n # _atom_sites.entry_id 4KXM _atom_sites.fract_transf_matrix[1][1] 0.031108 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006372 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010355 _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] 0.012916 _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 2 6IA A 1 201 201 6IA 6I6 . F 2 6IA B 1 201 201 6IA 6I6 . G 2 6IA C 1 201 201 6IA 6I6 . H 2 6IA D 1 201 201 6IA 6I6 . I 3 HOH A 1 301 1 HOH HOH . I 3 HOH A 2 302 2 HOH HOH . I 3 HOH A 3 303 3 HOH HOH . I 3 HOH A 4 304 4 HOH HOH . I 3 HOH A 5 305 5 HOH HOH . I 3 HOH A 6 306 6 HOH HOH . I 3 HOH A 7 307 7 HOH HOH . I 3 HOH A 8 308 8 HOH HOH . I 3 HOH A 9 309 9 HOH HOH . I 3 HOH A 10 310 10 HOH HOH . I 3 HOH A 11 311 11 HOH HOH . I 3 HOH A 12 312 12 HOH HOH . I 3 HOH A 13 313 13 HOH HOH . I 3 HOH A 14 314 14 HOH HOH . I 3 HOH A 15 315 15 HOH HOH . I 3 HOH A 16 316 17 HOH HOH . I 3 HOH A 17 317 18 HOH HOH . I 3 HOH A 18 318 19 HOH HOH . I 3 HOH A 19 319 20 HOH HOH . I 3 HOH A 20 320 21 HOH HOH . I 3 HOH A 21 321 22 HOH HOH . I 3 HOH A 22 322 23 HOH HOH . I 3 HOH A 23 323 24 HOH HOH . I 3 HOH A 24 324 25 HOH HOH . I 3 HOH A 25 325 26 HOH HOH . I 3 HOH A 26 326 27 HOH HOH . I 3 HOH A 27 327 28 HOH HOH . I 3 HOH A 28 328 29 HOH HOH . I 3 HOH A 29 329 30 HOH HOH . I 3 HOH A 30 330 31 HOH HOH . I 3 HOH A 31 331 32 HOH HOH . I 3 HOH A 32 332 33 HOH HOH . I 3 HOH A 33 333 34 HOH HOH . I 3 HOH A 34 334 35 HOH HOH . I 3 HOH A 35 335 36 HOH HOH . I 3 HOH A 36 336 37 HOH HOH . I 3 HOH A 37 337 38 HOH HOH . I 3 HOH A 38 338 39 HOH HOH . I 3 HOH A 39 339 41 HOH HOH . I 3 HOH A 40 340 42 HOH HOH . I 3 HOH A 41 341 43 HOH HOH . I 3 HOH A 42 342 44 HOH HOH . I 3 HOH A 43 343 46 HOH HOH . I 3 HOH A 44 344 47 HOH HOH . I 3 HOH A 45 345 48 HOH HOH . I 3 HOH A 46 346 49 HOH HOH . I 3 HOH A 47 347 50 HOH HOH . I 3 HOH A 48 348 51 HOH HOH . I 3 HOH A 49 349 52 HOH HOH . I 3 HOH A 50 350 53 HOH HOH . I 3 HOH A 51 351 54 HOH HOH . I 3 HOH A 52 352 55 HOH HOH . I 3 HOH A 53 353 57 HOH HOH . I 3 HOH A 54 354 58 HOH HOH . I 3 HOH A 55 355 59 HOH HOH . I 3 HOH A 56 356 61 HOH HOH . I 3 HOH A 57 357 63 HOH HOH . I 3 HOH A 58 358 64 HOH HOH . I 3 HOH A 59 359 65 HOH HOH . I 3 HOH A 60 360 69 HOH HOH . I 3 HOH A 61 361 70 HOH HOH . I 3 HOH A 62 362 71 HOH HOH . I 3 HOH A 63 363 72 HOH HOH . I 3 HOH A 64 364 73 HOH HOH . I 3 HOH A 65 365 74 HOH HOH . I 3 HOH A 66 366 75 HOH HOH . I 3 HOH A 67 367 77 HOH HOH . I 3 HOH A 68 368 78 HOH HOH . I 3 HOH A 69 369 79 HOH HOH . I 3 HOH A 70 370 80 HOH HOH . I 3 HOH A 71 371 81 HOH HOH . I 3 HOH A 72 372 82 HOH HOH . I 3 HOH A 73 373 83 HOH HOH . I 3 HOH A 74 374 2 HOH HOH . I 3 HOH A 75 375 3 HOH HOH . I 3 HOH A 76 376 4 HOH HOH . I 3 HOH A 77 377 5 HOH HOH . I 3 HOH A 78 378 6 HOH HOH . I 3 HOH A 79 379 7 HOH HOH . I 3 HOH A 80 380 8 HOH HOH . I 3 HOH A 81 381 9 HOH HOH . I 3 HOH A 82 382 10 HOH HOH . I 3 HOH A 83 383 11 HOH HOH . I 3 HOH A 84 384 12 HOH HOH . I 3 HOH A 85 385 14 HOH HOH . I 3 HOH A 86 386 15 HOH HOH . I 3 HOH A 87 387 16 HOH HOH . I 3 HOH A 88 388 17 HOH HOH . I 3 HOH A 89 389 18 HOH HOH . I 3 HOH A 90 390 19 HOH HOH . I 3 HOH A 91 391 21 HOH HOH . I 3 HOH A 92 392 23 HOH HOH . I 3 HOH A 93 393 24 HOH HOH . I 3 HOH A 94 394 25 HOH HOH . I 3 HOH A 95 395 26 HOH HOH . I 3 HOH A 96 396 27 HOH HOH . I 3 HOH A 97 397 28 HOH HOH . I 3 HOH A 98 398 29 HOH HOH . I 3 HOH A 99 399 30 HOH HOH . I 3 HOH A 100 400 31 HOH HOH . I 3 HOH A 101 401 34 HOH HOH . I 3 HOH A 102 402 35 HOH HOH . I 3 HOH A 103 403 36 HOH HOH . I 3 HOH A 104 404 37 HOH HOH . I 3 HOH A 105 405 38 HOH HOH . I 3 HOH A 106 406 40 HOH HOH . I 3 HOH A 107 407 41 HOH HOH . I 3 HOH A 108 408 43 HOH HOH . I 3 HOH A 109 409 44 HOH HOH . I 3 HOH A 110 410 47 HOH HOH . I 3 HOH A 111 411 48 HOH HOH . I 3 HOH A 112 412 49 HOH HOH . I 3 HOH A 113 413 51 HOH HOH . I 3 HOH A 114 414 52 HOH HOH . I 3 HOH A 115 415 54 HOH HOH . I 3 HOH A 116 416 57 HOH HOH . I 3 HOH A 117 417 59 HOH HOH . I 3 HOH A 118 418 60 HOH HOH . I 3 HOH A 119 419 61 HOH HOH . I 3 HOH A 120 420 62 HOH HOH . I 3 HOH A 121 421 66 HOH HOH . I 3 HOH A 122 422 67 HOH HOH . I 3 HOH A 123 423 71 HOH HOH . I 3 HOH A 124 424 72 HOH HOH . I 3 HOH A 125 425 73 HOH HOH . I 3 HOH A 126 426 75 HOH HOH . I 3 HOH A 127 427 76 HOH HOH . I 3 HOH A 128 428 77 HOH HOH . I 3 HOH A 129 429 78 HOH HOH . I 3 HOH A 130 430 79 HOH HOH . I 3 HOH A 131 431 80 HOH HOH . I 3 HOH A 132 432 81 HOH HOH . I 3 HOH A 133 433 83 HOH HOH . I 3 HOH A 134 434 97 HOH HOH . I 3 HOH A 135 435 101 HOH HOH . I 3 HOH A 136 436 107 HOH HOH . I 3 HOH A 137 437 111 HOH HOH . I 3 HOH A 138 438 131 HOH HOH . I 3 HOH A 139 439 175 HOH HOH . I 3 HOH A 140 440 178 HOH HOH . I 3 HOH A 141 441 181 HOH HOH . I 3 HOH A 142 442 182 HOH HOH . I 3 HOH A 143 443 183 HOH HOH . J 3 HOH B 1 301 84 HOH HOH . J 3 HOH B 2 302 87 HOH HOH . J 3 HOH B 3 303 88 HOH HOH . J 3 HOH B 4 304 91 HOH HOH . J 3 HOH B 5 305 92 HOH HOH . J 3 HOH B 6 306 94 HOH HOH . J 3 HOH B 7 307 105 HOH HOH . J 3 HOH B 8 308 170 HOH HOH . J 3 HOH B 9 309 171 HOH HOH . J 3 HOH B 10 310 172 HOH HOH . J 3 HOH B 11 311 173 HOH HOH . J 3 HOH B 12 312 174 HOH HOH . J 3 HOH B 13 313 176 HOH HOH . J 3 HOH B 14 314 177 HOH HOH . J 3 HOH B 15 315 179 HOH HOH . J 3 HOH B 16 316 180 HOH HOH . J 3 HOH B 17 317 192 HOH HOH . K 3 HOH C 1 301 96 HOH HOH . K 3 HOH C 2 302 113 HOH HOH . K 3 HOH C 3 303 160 HOH HOH . K 3 HOH C 4 304 167 HOH HOH . K 3 HOH C 5 305 185 HOH HOH . K 3 HOH C 6 306 186 HOH HOH . K 3 HOH C 7 307 187 HOH HOH . K 3 HOH C 8 308 188 HOH HOH . K 3 HOH C 9 309 189 HOH HOH . L 3 HOH D 1 301 85 HOH HOH . L 3 HOH D 2 302 86 HOH HOH . L 3 HOH D 3 303 90 HOH HOH . L 3 HOH D 4 304 93 HOH HOH . L 3 HOH D 5 305 103 HOH HOH . L 3 HOH D 6 306 106 HOH HOH . L 3 HOH D 7 307 110 HOH HOH . L 3 HOH D 8 308 112 HOH HOH . L 3 HOH D 9 309 159 HOH HOH . L 3 HOH D 10 310 166 HOH HOH . L 3 HOH D 11 311 184 HOH HOH . L 3 HOH D 12 312 190 HOH HOH . L 3 HOH D 13 313 191 HOH HOH . L 3 HOH D 14 314 193 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 O OP3 6IA . . . H 2 0.613 7.042 71.929 1 10.1 ? OP3 6IA 201 D 1 HETATM 2 P P 6IA . . . H 2 1.44 6.942 70.544 1 9.03 ? P 6IA 201 D 1 HETATM 3 O OP1 6IA . . . H 2 0.788 8.079 69.637 1 9.49 ? OP1 6IA 201 D 1 HETATM 4 O OP2 6IA . . . H 2 1.4 5.602 69.936 1 9.77 ? OP2 6IA 201 D 1 HETATM 5 O O5' 6IA . . . H 2 2.958 7.368 70.918 1 8.14 ? O5' 6IA 201 D 1 HETATM 6 C C5' 6IA . . . H 2 3.256 8.629 71.475 1 8.86 ? C5' 6IA 201 D 1 HETATM 7 C C4' 6IA . . . H 2 4.77 8.839 71.415 1 10.61 ? C4' 6IA 201 D 1 HETATM 8 O O4' 6IA . . . H 2 5.307 8.9 70.049 1 11.19 ? O4' 6IA 201 D 1 HETATM 9 C C3' 6IA . . . H 2 5.091 10.157 72.109 1 10.53 ? C3' 6IA 201 D 1 HETATM 10 O O3' 6IA . . . H 2 5.952 9.842 73.21 1 8.72 ? O3' 6IA 201 D 1 HETATM 11 C C2' 6IA . . . H 2 5.803 11.017 71.056 1 11.49 ? C2' 6IA 201 D 1 HETATM 12 O O2' 6IA . . . H 2 7.192 11.215 71.41 1 11.03 ? O2' 6IA 201 D 1 HETATM 13 C C1' 6IA . . . H 2 5.669 10.257 69.718 1 11.47 ? C1' 6IA 201 D 1 HETATM 14 N N9 6IA . . . H 2 4.612 10.863 68.828 1 13.14 ? N9 6IA 201 D 1 HETATM 15 C C8 6IA . . . H 2 3.473 10.284 68.43 1 13.52 ? C8 6IA 201 D 1 HETATM 16 N N7 6IA . . . H 2 2.781 11.133 67.653 1 14.44 ? N7 6IA 201 D 1 HETATM 17 C C5 6IA . . . H 2 3.486 12.253 67.557 1 14.73 ? C5 6IA 201 D 1 HETATM 18 C C6 6IA . . . H 2 3.286 13.46 66.907 1 17.13 ? C6 6IA 201 D 1 HETATM 19 N N6 6IA . . . H 2 2.18 13.654 66.182 1 20.35 ? N6 6IA 201 D 1 HETATM 20 N N1 6IA . . . H 2 4.234 14.412 67.012 1 17.58 ? N1 6IA 201 D 1 HETATM 21 C C2 6IA . . . H 2 5.335 14.227 67.725 1 16.14 ? C2 6IA 201 D 1 HETATM 22 N N3 6IA . . . H 2 5.543 13.081 68.359 1 14.79 ? N3 6IA 201 D 1 HETATM 23 C C4 6IA . . . H 2 4.647 12.083 68.293 1 13.55 ? C4 6IA 201 D 1 HETATM 24 C C12 6IA . . . H 2 1.529 14.983 66.07 0.7 22.46 ? C12 6IA 201 D 1 HETATM 25 C C13 6IA . . . H 2 2.165 15.737 65.077 0.7 23.59 ? C13 6IA 201 D 1 HETATM 26 C C14 6IA . . . H 2 3.031 16.826 65.226 0.7 24.59 ? C14 6IA 201 D 1 HETATM 27 C C15 6IA . . . H 2 3.38 17.399 66.608 0.7 24.64 ? C15 6IA 201 D 1 HETATM 28 C C16 6IA . . . H 2 3.64 17.484 63.983 0.7 25.28 ? C16 6IA 201 D 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 28 #