data_7UF2 # _model_server_result.job_id 3MqiNfqlTN9y-nIFXinTGA _model_server_result.datetime_utc '2024-11-27 03:17:15' _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 7uf2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7UF2 # _exptl.entry_id 7UF2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.11 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-O-phosphono-D-xylulose _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 7UF2 _cell.length_a 61.029 _cell.length_b 79.106 _cell.length_c 91.34 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UF2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 45.67 # _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 OE1 GLU 39 A GLU 39 1_555 C MN MN . A MN 302 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc2 A OE1 GLU 39 A GLU 39 1_555 C MN MN . A MN 302 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc3 A ND1 HIS 154 A HIS 154 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc4 B O10 5SP . A 5SP 301 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.792 ? metalc ? metalc5 B O14 5SP . A 5SP 301 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc6 C MN MN . A MN 302 1_555 F O HOH . A HOH 435 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? # _chem_comp.formula 'C5 H11 O8 P' _chem_comp.formula_weight 230.11 _chem_comp.id 5SP _chem_comp.mon_nstd_flag . _chem_comp.name 5-O-phosphono-D-xylulose _chem_comp.type saccharide _chem_comp.pdbx_synonyms 'D-xylulose 5-phosphate' # 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 C2 5SP sing 1 n n C2 C3 5SP sing 2 n n C3 O4 5SP doub 3 n n C3 C5 5SP sing 4 n n C5 C6 5SP sing 5 n n C5 O13 5SP sing 6 n n C6 C7 5SP sing 7 n n C6 O14 5SP sing 8 n n C7 O8 5SP sing 9 n n O8 P9 5SP sing 10 n n P9 O10 5SP doub 11 n n P9 O11 5SP sing 12 n n P9 O12 5SP sing 13 n n O1 HO1 5SP sing 14 n n C2 H2 5SP sing 15 n n C2 H2A 5SP sing 16 n n C5 H5 5SP sing 17 n n C6 H6 5SP sing 18 n n C7 H7 5SP sing 19 n n C7 H7A 5SP sing 20 n n O11 HO11 5SP sing 21 n n O12 HO12 5SP sing 22 n n O13 HO13 5SP sing 23 n n O14 HO14 5SP sing 24 n n # _atom_sites.entry_id 7UF2 _atom_sites.fract_transf_matrix[1][1] 0.016386 _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] 0.012641 _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] 0.010948 _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 5SP A 1 301 1 5SP LIG . C 3 MN A 1 302 2 MN MN . D 4 EDO A 1 303 1 EDO EDO . E 4 EDO A 1 304 3 EDO EDO . F 5 HOH A 1 401 71 HOH HOH . F 5 HOH A 2 402 6 HOH HOH . F 5 HOH A 3 403 101 HOH HOH . F 5 HOH A 4 404 90 HOH HOH . F 5 HOH A 5 405 68 HOH HOH . F 5 HOH A 6 406 28 HOH HOH . F 5 HOH A 7 407 66 HOH HOH . F 5 HOH A 8 408 24 HOH HOH . F 5 HOH A 9 409 27 HOH HOH . F 5 HOH A 10 410 5 HOH HOH . F 5 HOH A 11 411 52 HOH HOH . F 5 HOH A 12 412 91 HOH HOH . F 5 HOH A 13 413 33 HOH HOH . F 5 HOH A 14 414 10 HOH HOH . F 5 HOH A 15 415 54 HOH HOH . F 5 HOH A 16 416 4 HOH HOH . F 5 HOH A 17 417 7 HOH HOH . F 5 HOH A 18 418 9 HOH HOH . F 5 HOH A 19 419 63 HOH HOH . F 5 HOH A 20 420 8 HOH HOH . F 5 HOH A 21 421 25 HOH HOH . F 5 HOH A 22 422 55 HOH HOH . F 5 HOH A 23 423 43 HOH HOH . F 5 HOH A 24 424 23 HOH HOH . F 5 HOH A 25 425 72 HOH HOH . F 5 HOH A 26 426 53 HOH HOH . F 5 HOH A 27 427 41 HOH HOH . F 5 HOH A 28 428 51 HOH HOH . F 5 HOH A 29 429 20 HOH HOH . F 5 HOH A 30 430 18 HOH HOH . F 5 HOH A 31 431 1 HOH HOH . F 5 HOH A 32 432 78 HOH HOH . F 5 HOH A 33 433 26 HOH HOH . F 5 HOH A 34 434 16 HOH HOH . F 5 HOH A 35 435 2 HOH HOH . F 5 HOH A 36 436 93 HOH HOH . F 5 HOH A 37 437 35 HOH HOH . F 5 HOH A 38 438 77 HOH HOH . F 5 HOH A 39 439 67 HOH HOH . F 5 HOH A 40 440 14 HOH HOH . F 5 HOH A 41 441 84 HOH HOH . F 5 HOH A 42 442 39 HOH HOH . F 5 HOH A 43 443 11 HOH HOH . F 5 HOH A 44 444 76 HOH HOH . F 5 HOH A 45 445 73 HOH HOH . F 5 HOH A 46 446 12 HOH HOH . F 5 HOH A 47 447 49 HOH HOH . F 5 HOH A 48 448 21 HOH HOH . F 5 HOH A 49 449 22 HOH HOH . F 5 HOH A 50 450 19 HOH HOH . F 5 HOH A 51 451 32 HOH HOH . F 5 HOH A 52 452 17 HOH HOH . F 5 HOH A 53 453 31 HOH HOH . F 5 HOH A 54 454 102 HOH HOH . F 5 HOH A 55 455 15 HOH HOH . F 5 HOH A 56 456 61 HOH HOH . F 5 HOH A 57 457 3 HOH HOH . F 5 HOH A 58 458 99 HOH HOH . F 5 HOH A 59 459 44 HOH HOH . F 5 HOH A 60 460 48 HOH HOH . F 5 HOH A 61 461 45 HOH HOH . F 5 HOH A 62 462 42 HOH HOH . F 5 HOH A 63 463 46 HOH HOH . F 5 HOH A 64 464 98 HOH HOH . F 5 HOH A 65 465 34 HOH HOH . F 5 HOH A 66 466 97 HOH HOH . F 5 HOH A 67 467 87 HOH HOH . F 5 HOH A 68 468 92 HOH HOH . F 5 HOH A 69 469 79 HOH HOH . F 5 HOH A 70 470 59 HOH HOH . F 5 HOH A 71 471 50 HOH HOH . F 5 HOH A 72 472 74 HOH HOH . F 5 HOH A 73 473 29 HOH HOH . F 5 HOH A 74 474 80 HOH HOH . F 5 HOH A 75 475 89 HOH HOH . F 5 HOH A 76 476 38 HOH HOH . F 5 HOH A 77 477 40 HOH HOH . F 5 HOH A 78 478 58 HOH HOH . F 5 HOH A 79 479 13 HOH HOH . F 5 HOH A 80 480 85 HOH HOH . F 5 HOH A 81 481 65 HOH HOH . F 5 HOH A 82 482 37 HOH HOH . F 5 HOH A 83 483 30 HOH HOH . F 5 HOH A 84 484 104 HOH HOH . F 5 HOH A 85 485 75 HOH HOH . F 5 HOH A 86 486 64 HOH HOH . F 5 HOH A 87 487 94 HOH HOH . F 5 HOH A 88 488 88 HOH HOH . F 5 HOH A 89 489 60 HOH HOH . F 5 HOH A 90 490 70 HOH HOH . F 5 HOH A 91 491 81 HOH HOH . F 5 HOH A 92 492 100 HOH HOH . F 5 HOH A 93 493 62 HOH HOH . F 5 HOH A 94 494 95 HOH HOH . F 5 HOH A 95 495 103 HOH HOH . F 5 HOH A 96 496 83 HOH HOH . F 5 HOH A 97 497 106 HOH HOH . F 5 HOH A 98 498 82 HOH HOH . F 5 HOH A 99 499 47 HOH HOH . F 5 HOH A 100 500 36 HOH HOH . F 5 HOH A 101 501 56 HOH HOH . F 5 HOH A 102 502 69 HOH HOH . F 5 HOH A 103 503 57 HOH HOH . F 5 HOH A 104 504 96 HOH HOH . F 5 HOH A 105 505 86 HOH HOH . F 5 HOH A 106 506 105 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 5SP . . . B 2 -2.717 -5.374 16.125 1 46.22 ? O1 5SP 301 A 1 HETATM 2 C C2 5SP . . . B 2 -3.834 -5.168 15.298 1 42.5 ? C2 5SP 301 A 1 HETATM 3 C C3 5SP . . . B 2 -3.431 -5 13.82 1 43.85 ? C3 5SP 301 A 1 HETATM 4 O O4 5SP . . . B 2 -2.307 -5.116 13.446 1 43.42 ? O4 5SP 301 A 1 HETATM 5 C C5 5SP . . . B 2 -4.507 -4.782 12.75 1 57.44 ? C5 5SP 301 A 1 HETATM 6 C C6 5SP . . . B 2 -5.249 -6.121 12.878 1 51.78 ? C6 5SP 301 A 1 HETATM 7 C C7 5SP . . . B 2 -6.417 -6.198 11.933 1 48.05 ? C7 5SP 301 A 1 HETATM 8 O O8 5SP . . . B 2 -6.711 -4.858 11.765 1 39.83 ? O8 5SP 301 A 1 HETATM 9 P P9 5SP . . . B 2 -7.045 -4.351 10.253 1 23.13 ? P9 5SP 301 A 1 HETATM 10 O O10 5SP . . . B 2 -7.307 -5.442 9.255 1 22.82 -1 O10 5SP 301 A 1 HETATM 11 O O11 5SP . . . B 2 -5.932 -3.458 9.816 1 27.51 -1 O11 5SP 301 A 1 HETATM 12 O O12 5SP . . . B 2 -8.36 -3.606 10.344 1 17.2 ? O12 5SP 301 A 1 HETATM 13 O O13 5SP . . . B 2 -3.897 -4.582 11.518 1 60.86 ? O13 5SP 301 A 1 HETATM 14 O O14 5SP . . . B 2 -4.26 -7.052 12.526 1 31.51 ? O14 5SP 301 A 1 HETATM 15 H HO1 5SP . . . B 2 -2.988 -5.358 17.029 1 55.45 ? HO1 5SP 301 A 1 HETATM 16 H H2 5SP . . . B 2 -4.358 -4.276 15.626 1 50.98 ? H2 5SP 301 A 1 HETATM 17 H H2A 5SP . . . B 2 -4.478 -6.026 15.433 1 50.98 ? H2A 5SP 301 A 1 HETATM 18 H H5 5SP . . . B 2 -5.141 -3.952 13.028 1 68.9 ? H5 5SP 301 A 1 HETATM 19 H H6 5SP . . . B 2 -5.622 -6.3 13.873 1 62.12 ? H6 5SP 301 A 1 HETATM 20 H H7 5SP . . . B 2 -7.248 -6.744 12.365 1 57.64 ? H7 5SP 301 A 1 HETATM 21 H H7A 5SP . . . B 2 -6.15 -6.56 10.975 1 57.64 ? H7A 5SP 301 A 1 HETATM 22 H HO13 5SP . . . B 2 -4.215 -3.78 11.136 1 73.01 ? HO13 5SP 301 A 1 HETATM 23 H HO14 5SP . . . B 2 -4.325 -7.807 13.088 1 37.79 ? HO14 5SP 301 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #