data_8H3J # _model_server_result.job_id xcd_ZIPraHdyuj0foilOig _model_server_result.datetime_utc '2024-11-24 12:38:46' _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 8h3j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 8H3J # _exptl.entry_id 8H3J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 351.358 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(2E)-4-hydroxy-3-methylbut-2-en-1-yl]adenosine _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 8H3J _cell.length_a 59.46 _cell.length_b 59.46 _cell.length_c 91.659 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8H3J _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # _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 # _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 'C15 H21 N5 O5' _chem_comp.formula_weight 351.358 _chem_comp.id Q3V _chem_comp.mon_nstd_flag . _chem_comp.name N-[(2E)-4-hydroxy-3-methylbut-2-en-1-yl]adenosine _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 C11 O1 Q3V sing 277 n n C11 C10 Q3V sing 278 n n O4 C14 Q3V sing 279 n n C10 O Q3V sing 280 n n C10 C12 Q3V sing 281 n n O C9 Q3V sing 282 n n C7 N4 Q3V doub 283 n y C7 N3 Q3V sing 284 n y N4 C8 Q3V sing 285 n y C14 C1 Q3V sing 286 n n C12 C13 Q3V sing 287 n n C12 O2 Q3V sing 288 n n N3 C9 Q3V sing 289 n n N3 C6 Q3V sing 290 n y C9 C13 Q3V sing 291 n n C1 C Q3V sing 292 n n C1 C2 Q3V doub 293 e n C8 C6 Q3V doub 294 n y C8 C4 Q3V sing 295 n y C13 O3 Q3V sing 296 n n C2 C3 Q3V sing 297 n n C6 N2 Q3V sing 298 n y N C4 Q3V sing 299 n n N C3 Q3V sing 300 n n C4 N1 Q3V doub 301 n y N2 C5 Q3V doub 302 n y N1 C5 Q3V sing 303 n y C7 H1 Q3V sing 304 n n C9 H2 Q3V sing 305 n n O1 H3 Q3V sing 306 n n C5 H4 Q3V sing 307 n n O4 H5 Q3V sing 308 n n C3 H6 Q3V sing 309 n n C3 H7 Q3V sing 310 n n O3 H8 Q3V sing 311 n n C2 H9 Q3V sing 312 n n C10 H10 Q3V sing 313 n n C11 H11 Q3V sing 314 n n C11 H12 Q3V sing 315 n n C12 H13 Q3V sing 316 n n C13 H14 Q3V sing 317 n n C14 H15 Q3V sing 318 n n C14 H16 Q3V sing 319 n n C H17 Q3V sing 320 n n C H18 Q3V sing 321 n n C H19 Q3V sing 322 n n N H20 Q3V sing 323 n n O2 H21 Q3V sing 324 n n # _atom_sites.entry_id 8H3J _atom_sites.fract_transf_matrix[1][1] 0.016818 _atom_sites.fract_transf_matrix[1][2] 0.00971 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01942 _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] 0.01091 _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 Q3V A 1 201 1 Q3V TZR . C 3 HOH A 1 301 13 HOH HOH . C 3 HOH A 2 302 75 HOH HOH . C 3 HOH A 3 303 43 HOH HOH . C 3 HOH A 4 304 92 HOH HOH . C 3 HOH A 5 305 93 HOH HOH . C 3 HOH A 6 306 18 HOH HOH . C 3 HOH A 7 307 12 HOH HOH . C 3 HOH A 8 308 59 HOH HOH . C 3 HOH A 9 309 44 HOH HOH . C 3 HOH A 10 310 45 HOH HOH . C 3 HOH A 11 311 91 HOH HOH . C 3 HOH A 12 312 95 HOH HOH . C 3 HOH A 13 313 82 HOH HOH . C 3 HOH A 14 314 21 HOH HOH . C 3 HOH A 15 315 17 HOH HOH . C 3 HOH A 16 316 32 HOH HOH . C 3 HOH A 17 317 33 HOH HOH . C 3 HOH A 18 318 62 HOH HOH . C 3 HOH A 19 319 79 HOH HOH . C 3 HOH A 20 320 23 HOH HOH . C 3 HOH A 21 321 34 HOH HOH . C 3 HOH A 22 322 56 HOH HOH . C 3 HOH A 23 323 2 HOH HOH . C 3 HOH A 24 324 41 HOH HOH . C 3 HOH A 25 325 8 HOH HOH . C 3 HOH A 26 326 71 HOH HOH . C 3 HOH A 27 327 15 HOH HOH . C 3 HOH A 28 328 73 HOH HOH . C 3 HOH A 29 329 85 HOH HOH . C 3 HOH A 30 330 1 HOH HOH . C 3 HOH A 31 331 55 HOH HOH . C 3 HOH A 32 332 24 HOH HOH . C 3 HOH A 33 333 7 HOH HOH . C 3 HOH A 34 334 77 HOH HOH . C 3 HOH A 35 335 48 HOH HOH . C 3 HOH A 36 336 46 HOH HOH . C 3 HOH A 37 337 86 HOH HOH . C 3 HOH A 38 338 10 HOH HOH . C 3 HOH A 39 339 27 HOH HOH . C 3 HOH A 40 340 66 HOH HOH . C 3 HOH A 41 341 35 HOH HOH . C 3 HOH A 42 342 90 HOH HOH . C 3 HOH A 43 343 14 HOH HOH . C 3 HOH A 44 344 57 HOH HOH . C 3 HOH A 45 345 22 HOH HOH . C 3 HOH A 46 346 101 HOH HOH . C 3 HOH A 47 347 28 HOH HOH . C 3 HOH A 48 348 20 HOH HOH . C 3 HOH A 49 349 96 HOH HOH . C 3 HOH A 50 350 9 HOH HOH . C 3 HOH A 51 351 30 HOH HOH . C 3 HOH A 52 352 5 HOH HOH . C 3 HOH A 53 353 67 HOH HOH . C 3 HOH A 54 354 4 HOH HOH . C 3 HOH A 55 355 11 HOH HOH . C 3 HOH A 56 356 100 HOH HOH . C 3 HOH A 57 357 89 HOH HOH . C 3 HOH A 58 358 49 HOH HOH . C 3 HOH A 59 359 76 HOH HOH . C 3 HOH A 60 360 25 HOH HOH . C 3 HOH A 61 361 70 HOH HOH . C 3 HOH A 62 362 3 HOH HOH . C 3 HOH A 63 363 42 HOH HOH . C 3 HOH A 64 364 29 HOH HOH . C 3 HOH A 65 365 98 HOH HOH . C 3 HOH A 66 366 39 HOH HOH . C 3 HOH A 67 367 63 HOH HOH . C 3 HOH A 68 368 37 HOH HOH . C 3 HOH A 69 369 87 HOH HOH . C 3 HOH A 70 370 19 HOH HOH . C 3 HOH A 71 371 6 HOH HOH . C 3 HOH A 72 372 61 HOH HOH . C 3 HOH A 73 373 80 HOH HOH . C 3 HOH A 74 374 60 HOH HOH . C 3 HOH A 75 375 51 HOH HOH . C 3 HOH A 76 376 40 HOH HOH . C 3 HOH A 77 377 16 HOH HOH . C 3 HOH A 78 378 52 HOH HOH . C 3 HOH A 79 379 53 HOH HOH . C 3 HOH A 80 380 31 HOH HOH . C 3 HOH A 81 381 47 HOH HOH . C 3 HOH A 82 382 74 HOH HOH . C 3 HOH A 83 383 72 HOH HOH . C 3 HOH A 84 384 68 HOH HOH . C 3 HOH A 85 385 64 HOH HOH . C 3 HOH A 86 386 78 HOH HOH . C 3 HOH A 87 387 94 HOH HOH . C 3 HOH A 88 388 26 HOH HOH . C 3 HOH A 89 389 97 HOH HOH . C 3 HOH A 90 390 99 HOH HOH . C 3 HOH A 91 391 36 HOH HOH . C 3 HOH A 92 392 38 HOH HOH . C 3 HOH A 93 393 88 HOH HOH . C 3 HOH A 94 394 58 HOH HOH . C 3 HOH A 95 395 65 HOH HOH . C 3 HOH A 96 396 81 HOH HOH . C 3 HOH A 97 397 83 HOH HOH . C 3 HOH A 98 398 50 HOH HOH . C 3 HOH A 99 399 54 HOH HOH . C 3 HOH A 100 400 84 HOH HOH . C 3 HOH A 101 401 69 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 N N1 Q3V . . . B 2 16.526 -6.55 -2.386 1 43.91 ? N1 Q3V 201 A 1 HETATM 2 C C7 Q3V . . . B 2 19.642 -3.952 -0.022 1 38.31 ? C7 Q3V 201 A 1 HETATM 3 C C8 Q3V . . . B 2 17.877 -5.013 -1.004 1 45.25 ? C8 Q3V 201 A 1 HETATM 4 N N2 Q3V . . . B 2 18.968 -6.716 -2.452 1 46.63 ? N2 Q3V 201 A 1 HETATM 5 C C9 Q3V . . . B 2 21.702 -5.243 -1.087 1 38.63 ? C9 Q3V 201 A 1 HETATM 6 O O1 Q3V . . . B 2 22.065 -8.295 -2.801 1 43.19 ? O1 Q3V 201 A 1 HETATM 7 C C1 Q3V . . . B 2 11.845 -3.843 -0.06 1 47.69 ? C1 Q3V 201 A 1 HETATM 8 C C5 Q3V . . . B 2 17.752 -7.108 -2.832 1 41.53 ? C5 Q3V 201 A 1 HETATM 9 C C6 Q3V . . . B 2 19.05 -5.646 -1.518 1 42.45 ? C6 Q3V 201 A 1 HETATM 10 N N3 Q3V . . . B 2 20.201 -4.973 -0.889 1 35.24 ? N3 Q3V 201 A 1 HETATM 11 C C4 Q3V . . . B 2 16.507 -5.509 -1.481 1 43.83 ? C4 Q3V 201 A 1 HETATM 12 O O4 Q3V . . . B 2 12.547 -4.179 2.316 1 47.67 ? O4 Q3V 201 A 1 HETATM 13 C C3 Q3V . . . B 2 13.794 -5.222 -1.26 1 44.83 ? C3 Q3V 201 A 1 HETATM 14 O O3 Q3V . . . B 2 22.533 -6.414 0.97 1 27.75 ? O3 Q3V 201 A 1 HETATM 15 C C2 Q3V . . . B 2 12.694 -4.101 -1.105 1 49.53 ? C2 Q3V 201 A 1 HETATM 16 N N4 Q3V . . . B 2 18.3 -3.974 -0.085 1 45.04 ? N4 Q3V 201 A 1 HETATM 17 C C10 Q3V . . . B 2 23.217 -6.243 -2.515 1 36.89 ? C10 Q3V 201 A 1 HETATM 18 C C11 Q3V . . . B 2 23.018 -7.495 -3.424 1 40.42 ? C11 Q3V 201 A 1 HETATM 19 C C12 Q3V . . . B 2 23.62 -6.683 -1.064 1 33.7 ? C12 Q3V 201 A 1 HETATM 20 C C13 Q3V . . . B 2 22.235 -6.535 -0.369 1 39.05 ? C13 Q3V 201 A 1 HETATM 21 C C14 Q3V . . . B 2 11.88 -4.742 1.226 1 47.25 ? C14 Q3V 201 A 1 HETATM 22 C C Q3V . . . B 2 10.828 -2.686 -0.094 1 53.23 ? C Q3V 201 A 1 HETATM 23 N N Q3V . . . B 2 15.285 -4.904 -0.997 1 48 ? N Q3V 201 A 1 HETATM 24 O O2 Q3V . . . B 2 24.471 -5.828 -0.403 1 33.49 ? O2 Q3V 201 A 1 HETATM 25 O O Q3V . . . B 2 21.983 -5.547 -2.443 1 40.14 ? O Q3V 201 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 25 #