data_4JKW # _model_server_result.job_id CH9-8RnB1RXwm5L6tU4O6A _model_server_result.datetime_utc '2025-07-31 03:36:47' _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 4jkw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4JKW # _exptl.entry_id 4JKW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 246.092 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-METHYLBUT-3-ENYL TRIHYDROGEN 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 90 _cell.entry_id 4JKW _cell.length_a 32.717 _cell.length_b 36.194 _cell.length_c 108.013 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JKW _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 25 A CYS 25 1_555 A SG CYS 99 A CYS 99 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 25 A CYS 25 1_555 A SG CYS 99 A CYS 99 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.037 ? # _chem_comp.formula 'C5 H12 O7 P2' _chem_comp.formula_weight 246.092 _chem_comp.id IPE _chem_comp.mon_nstd_flag . _chem_comp.name '3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ISOPENTENYL PYROPHOSPHATE' # 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 C1 O1 IPE sing 173 n n C1 C2 IPE sing 174 n n C1 H11 IPE sing 175 n n C1 H12 IPE sing 176 n n O1 PA IPE sing 177 n n C2 C3 IPE sing 178 n n C2 H21 IPE sing 179 n n C2 H22 IPE sing 180 n n C3 C4 IPE doub 181 n n C3 C5 IPE sing 182 n n C4 H41 IPE sing 183 n n C4 H42 IPE sing 184 n n C5 H51 IPE sing 185 n n C5 H52 IPE sing 186 n n C5 H53 IPE sing 187 n n PA O1A IPE doub 188 n n PA O2A IPE sing 189 n n PA O3A IPE sing 190 n n O2A H2A IPE sing 191 n n O3A PB IPE sing 192 n n PB O1B IPE sing 193 n n PB O2B IPE doub 194 n n PB O3B IPE sing 195 n n O1B H1B IPE sing 196 n n O3B H3B IPE sing 197 n n # _atom_sites.entry_id 4JKW _atom_sites.fract_transf_matrix[1][1] 0.030565 _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] 0.027629 _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] 0.009258 _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 IPE A 1 201 1 IPE IPE . C 3 HOH A 1 301 1 HOH HOH . C 3 HOH A 2 302 2 HOH HOH . C 3 HOH A 3 303 3 HOH HOH . C 3 HOH A 4 304 4 HOH HOH . C 3 HOH A 5 305 5 HOH HOH . C 3 HOH A 6 306 6 HOH HOH . C 3 HOH A 7 307 7 HOH HOH . C 3 HOH A 8 308 8 HOH HOH . C 3 HOH A 9 309 9 HOH HOH . C 3 HOH A 10 310 10 HOH HOH . C 3 HOH A 11 311 11 HOH HOH . C 3 HOH A 12 312 12 HOH HOH . C 3 HOH A 13 313 13 HOH HOH . C 3 HOH A 14 314 14 HOH HOH . C 3 HOH A 15 315 15 HOH HOH . C 3 HOH A 16 316 16 HOH HOH . C 3 HOH A 17 317 17 HOH HOH . C 3 HOH A 18 318 18 HOH HOH . C 3 HOH A 19 319 19 HOH HOH . C 3 HOH A 20 320 20 HOH HOH . C 3 HOH A 21 321 21 HOH HOH . C 3 HOH A 22 322 22 HOH HOH . C 3 HOH A 23 323 23 HOH HOH . C 3 HOH A 24 324 24 HOH HOH . C 3 HOH A 25 325 25 HOH HOH . C 3 HOH A 26 326 26 HOH HOH . C 3 HOH A 27 327 27 HOH HOH . C 3 HOH A 28 328 28 HOH HOH . C 3 HOH A 29 329 29 HOH HOH . C 3 HOH A 30 330 30 HOH HOH . C 3 HOH A 31 331 31 HOH HOH . C 3 HOH A 32 332 32 HOH HOH . C 3 HOH A 33 333 33 HOH HOH . C 3 HOH A 34 334 34 HOH HOH . C 3 HOH A 35 335 35 HOH HOH . C 3 HOH A 36 336 36 HOH HOH . C 3 HOH A 37 337 37 HOH HOH . C 3 HOH A 38 338 38 HOH HOH . C 3 HOH A 39 339 39 HOH HOH . C 3 HOH A 40 340 40 HOH HOH . C 3 HOH A 41 341 41 HOH HOH . C 3 HOH A 42 342 42 HOH HOH . C 3 HOH A 43 343 43 HOH HOH . C 3 HOH A 44 344 44 HOH HOH . C 3 HOH A 45 345 45 HOH HOH . C 3 HOH A 46 346 46 HOH HOH . C 3 HOH A 47 347 47 HOH HOH . C 3 HOH A 48 348 48 HOH HOH . C 3 HOH A 49 349 49 HOH HOH . C 3 HOH A 50 350 50 HOH HOH . C 3 HOH A 51 351 51 HOH HOH . C 3 HOH A 52 352 53 HOH HOH . C 3 HOH A 53 353 54 HOH HOH . C 3 HOH A 54 354 55 HOH HOH . C 3 HOH A 55 355 56 HOH HOH . C 3 HOH A 56 356 57 HOH HOH . C 3 HOH A 57 357 58 HOH HOH . C 3 HOH A 58 358 59 HOH HOH . C 3 HOH A 59 359 60 HOH HOH . C 3 HOH A 60 360 61 HOH HOH . C 3 HOH A 61 361 62 HOH HOH . C 3 HOH A 62 362 63 HOH HOH . C 3 HOH A 63 363 64 HOH HOH . C 3 HOH A 64 364 65 HOH HOH . C 3 HOH A 65 365 66 HOH HOH . C 3 HOH A 66 366 67 HOH HOH . C 3 HOH A 67 367 68 HOH HOH . C 3 HOH A 68 368 69 HOH HOH . C 3 HOH A 69 369 70 HOH HOH . C 3 HOH A 70 370 71 HOH HOH . C 3 HOH A 71 371 72 HOH HOH . C 3 HOH A 72 372 73 HOH HOH . C 3 HOH A 73 373 74 HOH HOH . C 3 HOH A 74 374 75 HOH HOH . C 3 HOH A 75 375 76 HOH HOH . C 3 HOH A 76 376 77 HOH HOH . C 3 HOH A 77 377 78 HOH HOH . C 3 HOH A 78 378 79 HOH HOH . C 3 HOH A 79 379 80 HOH HOH . C 3 HOH A 80 380 81 HOH HOH . C 3 HOH A 81 381 82 HOH HOH . C 3 HOH A 82 382 83 HOH HOH . C 3 HOH A 83 383 84 HOH HOH . C 3 HOH A 84 384 85 HOH HOH . C 3 HOH A 85 385 86 HOH HOH . C 3 HOH A 86 386 87 HOH HOH . C 3 HOH A 87 387 88 HOH HOH . C 3 HOH A 88 388 89 HOH HOH . C 3 HOH A 89 389 90 HOH HOH . C 3 HOH A 90 390 91 HOH HOH . C 3 HOH A 91 391 92 HOH HOH . C 3 HOH A 92 392 93 HOH HOH . C 3 HOH A 93 393 94 HOH HOH . C 3 HOH A 94 394 95 HOH HOH . C 3 HOH A 95 395 97 HOH HOH . C 3 HOH A 96 396 98 HOH HOH . C 3 HOH A 97 397 99 HOH HOH . C 3 HOH A 98 398 100 HOH HOH . C 3 HOH A 99 399 101 HOH HOH . C 3 HOH A 100 400 102 HOH HOH . C 3 HOH A 101 401 103 HOH HOH . C 3 HOH A 102 402 104 HOH HOH . C 3 HOH A 103 403 105 HOH HOH . C 3 HOH A 104 404 106 HOH HOH . C 3 HOH A 105 405 107 HOH HOH . C 3 HOH A 106 406 108 HOH HOH . C 3 HOH A 107 407 109 HOH HOH . C 3 HOH A 108 408 110 HOH HOH . C 3 HOH A 109 409 111 HOH HOH . C 3 HOH A 110 410 112 HOH HOH . C 3 HOH A 111 411 113 HOH HOH . C 3 HOH A 112 412 114 HOH HOH . C 3 HOH A 113 413 115 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 C C1 IPE . . . B 2 8.456 13.289 64.407 0.75 47.64 ? C1 IPE 201 A 1 HETATM 2 O O1 IPE . . . B 2 8.546 14.7 64.258 0.75 48.25 ? O1 IPE 201 A 1 HETATM 3 C C2 IPE . . . B 2 9.29 12.892 65.597 0.75 47.14 ? C2 IPE 201 A 1 HETATM 4 C C3 IPE . . . B 2 8.791 11.674 66.297 0.75 46.98 ? C3 IPE 201 A 1 HETATM 5 C C4 IPE . . . B 2 8.812 10.438 65.503 0.75 47.14 ? C4 IPE 201 A 1 HETATM 6 C C5 IPE . . . B 2 8.397 11.613 67.57 0.75 46.97 ? C5 IPE 201 A 1 HETATM 7 P PA IPE . . . B 2 7.425 15.668 63.655 0.75 48.56 ? PA IPE 201 A 1 HETATM 8 O O1A IPE . . . B 2 6.997 15.256 62.363 0.75 48.88 ? O1A IPE 201 A 1 HETATM 9 O O2A IPE . . . B 2 8.158 17.051 63.607 0.75 48.65 ? O2A IPE 201 A 1 HETATM 10 O O3A IPE . . . B 2 6.019 15.79 64.351 0.75 48.83 ? O3A IPE 201 A 1 HETATM 11 P PB IPE . . . B 2 4.723 15.061 63.808 0.75 49.06 ? PB IPE 201 A 1 HETATM 12 O O1B IPE . . . B 2 3.624 14.63 64.92 0.75 48.98 ? O1B IPE 201 A 1 HETATM 13 O O2B IPE . . . B 2 5.357 13.823 63.069 0.75 49.55 ? O2B IPE 201 A 1 HETATM 14 O O3B IPE . . . B 2 4.073 15.782 62.828 0.75 49.61 ? O3B IPE 201 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #