data_4PFK # _model_server_result.job_id pBi1xUPBXIed3JAcT7fueQ _model_server_result.datetime_utc '2025-07-05 13:34:45' _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 4pfk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":323}' # _entry.id 4PFK # _exptl.entry_id 4PFK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 260.136 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 6-O-phosphono-beta-D-fructofuranose _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 4PFK _cell.length_a 122.5 _cell.length_b 84.1 _cell.length_c 61.5 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PFK _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 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 metalc ? metalc1 A O GLY 185 A GLY 185 1_555 D MG MG . A MG 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc2 A OE1 GLU 187 A GLU 187 1_555 D MG MG . A MG 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? metalc ? metalc3 E O2A ADP . A ADP 324 1_555 C MG MG . A MG 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.017 ? metalc ? metalc4 E O2B ADP . A ADP 324 1_555 C MG MG . A MG 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc5 E O1A ADP . A ADP 324 1_555 C MG MG . A MG 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.52 ? metalc ? metalc6 E O1B ADP . A ADP 324 1_555 C MG MG . A MG 325 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.848 ? metalc ? metalc7 F O2B ADP . A ADP 326 1_555 D MG MG . A MG 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? metalc ? metalc8 F O2A ADP . A ADP 326 1_555 D MG MG . A MG 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc9 D MG MG . A MG 327 1_555 G O HOH . A HOH 386 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc10 D MG MG . A MG 327 1_555 G O HOH . A HOH 387 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? # _chem_comp.formula 'C6 H13 O9 P' _chem_comp.formula_weight 260.136 _chem_comp.id F6P _chem_comp.mon_nstd_flag n _chem_comp.name 6-O-phosphono-beta-D-fructofuranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms FRUCTOSE-6-PHOSPHATE;6-O-phosphono-beta-D-fructose;6-O-phosphono-D-fructose;6-O-phosphono-fructose # 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 O1 C1 F6P sing 127 n n O1 HO1 F6P sing 128 n n C1 C2 F6P sing 129 n n C1 H11 F6P sing 130 n n C1 H12 F6P sing 131 n n C2 O2 F6P sing 132 n n C2 C3 F6P sing 133 n n C2 O5 F6P sing 134 n n O2 HO2 F6P sing 135 n n C3 O3 F6P sing 136 n n C3 C4 F6P sing 137 n n C3 H3 F6P sing 138 n n O3 HO3 F6P sing 139 n n C4 O4 F6P sing 140 n n C4 C5 F6P sing 141 n n C4 H4 F6P sing 142 n n O4 HO4 F6P sing 143 n n C5 O5 F6P sing 144 n n C5 C6 F6P sing 145 n n C5 H5 F6P sing 146 n n C6 O6 F6P sing 147 n n C6 H61 F6P sing 148 n n C6 H62 F6P sing 149 n n O6 P F6P sing 150 n n P O1P F6P doub 151 n n P O2P F6P sing 152 n n P O3P F6P sing 153 n n O2P HOP2 F6P sing 154 n n O3P HOP3 F6P sing 155 n n # _pdbx_chem_comp_identifier.comp_id F6P _pdbx_chem_comp_identifier.identifier b-D-Fruf6PO3 _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 4PFK _atom_sites.fract_transf_matrix[1][1] 0.008163 _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] 0.011891 _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] 0.01626 _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 F6P A 1 323 323 F6P F6P . C 3 MG A 1 325 325 MG MG . D 3 MG A 1 327 327 MG MG . E 4 ADP A 1 324 324 ADP ADP . F 4 ADP A 1 326 326 ADP ADP . G 5 HOH A 1 328 1 HOH HOH . G 5 HOH A 2 329 2 HOH HOH . G 5 HOH A 3 330 3 HOH HOH . G 5 HOH A 4 331 4 HOH HOH . G 5 HOH A 5 332 5 HOH HOH . G 5 HOH A 6 333 6 HOH HOH . G 5 HOH A 7 334 7 HOH HOH . G 5 HOH A 8 335 8 HOH HOH . G 5 HOH A 9 336 9 HOH HOH . G 5 HOH A 10 337 10 HOH HOH . G 5 HOH A 11 338 15 HOH HOH . G 5 HOH A 12 339 16 HOH HOH . G 5 HOH A 13 340 17 HOH HOH . G 5 HOH A 14 341 18 HOH HOH . G 5 HOH A 15 342 19 HOH HOH . G 5 HOH A 16 343 20 HOH HOH . G 5 HOH A 17 344 21 HOH HOH . G 5 HOH A 18 345 22 HOH HOH . G 5 HOH A 19 346 23 HOH HOH . G 5 HOH A 20 347 24 HOH HOH . G 5 HOH A 21 348 25 HOH HOH . G 5 HOH A 22 349 26 HOH HOH . G 5 HOH A 23 350 27 HOH HOH . G 5 HOH A 24 351 28 HOH HOH . G 5 HOH A 25 352 29 HOH HOH . G 5 HOH A 26 353 30 HOH HOH . G 5 HOH A 27 354 31 HOH HOH . G 5 HOH A 28 355 32 HOH HOH . G 5 HOH A 29 356 33 HOH HOH . G 5 HOH A 30 357 34 HOH HOH . G 5 HOH A 31 358 37 HOH HOH . G 5 HOH A 32 359 39 HOH HOH . G 5 HOH A 33 360 43 HOH HOH . G 5 HOH A 34 361 45 HOH HOH . G 5 HOH A 35 362 46 HOH HOH . G 5 HOH A 36 363 47 HOH HOH . G 5 HOH A 37 364 48 HOH HOH . G 5 HOH A 38 365 49 HOH HOH . G 5 HOH A 39 366 50 HOH HOH . G 5 HOH A 40 367 51 HOH HOH . G 5 HOH A 41 368 53 HOH HOH . G 5 HOH A 42 369 54 HOH HOH . G 5 HOH A 43 370 55 HOH HOH . G 5 HOH A 44 371 56 HOH HOH . G 5 HOH A 45 372 58 HOH HOH . G 5 HOH A 46 373 59 HOH HOH . G 5 HOH A 47 374 63 HOH HOH . G 5 HOH A 48 375 66 HOH HOH . G 5 HOH A 49 376 67 HOH HOH . G 5 HOH A 50 377 68 HOH HOH . G 5 HOH A 51 378 69 HOH HOH . G 5 HOH A 52 379 70 HOH HOH . G 5 HOH A 53 380 72 HOH HOH . G 5 HOH A 54 381 73 HOH HOH . G 5 HOH A 55 382 74 HOH HOH . G 5 HOH A 56 383 75 HOH HOH . G 5 HOH A 57 384 76 HOH HOH . G 5 HOH A 58 385 77 HOH HOH . G 5 HOH A 59 386 79 HOH HOH . G 5 HOH A 60 387 80 HOH HOH . G 5 HOH A 61 388 81 HOH HOH . G 5 HOH A 62 389 83 HOH HOH . G 5 HOH A 63 390 84 HOH HOH . G 5 HOH A 64 391 85 HOH HOH . G 5 HOH A 65 392 86 HOH HOH . G 5 HOH A 66 393 87 HOH HOH . G 5 HOH A 67 394 88 HOH HOH . G 5 HOH A 68 395 89 HOH HOH . G 5 HOH A 69 396 90 HOH HOH . G 5 HOH A 70 397 91 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 O1 F6P . . . B 2 13.626 -9.201 16.841 1 48.48 ? O1 F6P 323 A 1 HETATM 2 C C1 F6P . . . B 2 12.362 -8.703 16.439 1 47.38 ? C1 F6P 323 A 1 HETATM 3 C C2 F6P . . . B 2 11.618 -8.043 17.622 1 51.42 ? C2 F6P 323 A 1 HETATM 4 O O2 F6P . . . B 2 10.391 -7.537 17.045 1 49.7 ? O2 F6P 323 A 1 HETATM 5 C C3 F6P . . . B 2 12.298 -6.949 18.475 1 51.19 ? C3 F6P 323 A 1 HETATM 6 O O3 F6P . . . B 2 12.364 -5.618 17.96 1 48.53 ? O3 F6P 323 A 1 HETATM 7 C C4 F6P . . . B 2 11.382 -6.919 19.704 1 51.04 ? C4 F6P 323 A 1 HETATM 8 O O4 F6P . . . B 2 11.951 -6.378 20.896 1 46.03 ? O4 F6P 323 A 1 HETATM 9 C C5 F6P . . . B 2 11.131 -8.424 19.887 1 52.55 ? C5 F6P 323 A 1 HETATM 10 O O5 F6P . . . B 2 11.283 -9.091 18.59 1 54.69 ? O5 F6P 323 A 1 HETATM 11 C C6 F6P . . . B 2 9.752 -8.729 20.473 1 50.92 ? C6 F6P 323 A 1 HETATM 12 O O6 F6P . . . B 2 9.864 -10.053 21.018 1 52.77 ? O6 F6P 323 A 1 HETATM 13 P P F6P . . . B 2 8.61 -11.065 20.899 1 50.55 ? P F6P 323 A 1 HETATM 14 O O1P F6P . . . B 2 8.429 -11.291 19.448 1 49.94 ? O1P F6P 323 A 1 HETATM 15 O O2P F6P . . . B 2 9.007 -12.303 21.586 1 50.32 ? O2P F6P 323 A 1 HETATM 16 O O3P F6P . . . B 2 7.448 -10.426 21.553 1 45.82 ? O3P F6P 323 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 16 #