data_4HO6 # _model_server_result.job_id YKiC80AXgZCbVXNmtKO5uQ _model_server_result.datetime_utc '2024-11-14 04:46:56' _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 4ho6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":300}' # _entry.id 4HO6 # _exptl.entry_id 4HO6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 566.302 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE-5'-DIPHOSPHATE-GLUCOSE" _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 4HO6 _cell.length_a 91.541 _cell.length_b 91.541 _cell.length_c 67.584 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HO6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 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,C,D,E,F 1 1 A,B,C,D,E,F 2 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' 7_554 y,x,-z-1 0 1 0 1 0 0 0 0 -1 0 0 -67.584 4 'crystal symmetry operation' 8_554 -y,-x,-z-1 0 -1 0 -1 0 0 0 0 -1 0 0 -67.584 # _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 H24 N2 O17 P2' _chem_comp.formula_weight 566.302 _chem_comp.id UPG _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-5'-DIPHOSPHATE-GLUCOSE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE ESTER" # 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 N1 C2 UPG sing 362 n n N1 C6 UPG sing 363 n n N1 C1C UPG sing 364 n n C2 N3 UPG sing 365 n n C2 O2 UPG doub 366 n n N3 C4 UPG sing 367 n n N3 HN3 UPG sing 368 n n C4 C5 UPG sing 369 n n C4 O4 UPG doub 370 n n C5 C6 UPG doub 371 n n C5 H5 UPG sing 372 n n C6 H6 UPG sing 373 n n C1C C2C UPG sing 374 n n C1C O4C UPG sing 375 n n C1C H1C UPG sing 376 n n C2C O2C UPG sing 377 n n C2C C3C UPG sing 378 n n C2C H2C UPG sing 379 n n O2C HO2C UPG sing 380 n n C3C C4C UPG sing 381 n n C3C O3C UPG sing 382 n n C3C H3C UPG sing 383 n n C4C O4C UPG sing 384 n n C4C C5C UPG sing 385 n n C4C H4C UPG sing 386 n n O3C HO3C UPG sing 387 n n C5C O5C UPG sing 388 n n C5C H5C1 UPG sing 389 n n C5C H5C2 UPG sing 390 n n O5C PA UPG sing 391 n n PA O1A UPG doub 392 n n PA O2A UPG sing 393 n n PA O3A UPG sing 394 n n O2A HOA2 UPG sing 395 n n O3A PB UPG sing 396 n n PB O1B UPG doub 397 n n PB O2B UPG sing 398 n n PB O3B UPG sing 399 n n O2B HOB2 UPG sing 400 n n O3B C1' UPG sing 401 n n C1' C2' UPG sing 402 n n C1' O5' UPG sing 403 n n C1' H1' UPG sing 404 n n C2' C3' UPG sing 405 n n C2' O2' UPG sing 406 n n C2' H2' UPG sing 407 n n C3' C4' UPG sing 408 n n C3' O3' UPG sing 409 n n C3' H3' UPG sing 410 n n C4' C5' UPG sing 411 n n C4' O4' UPG sing 412 n n C4' H4' UPG sing 413 n n C5' C6' UPG sing 414 n n C5' O5' UPG sing 415 n n C5' H5' UPG sing 416 n n C6' O6' UPG sing 417 n n C6' "H6'1" UPG sing 418 n n C6' "H6'2" UPG sing 419 n n O2' HO2' UPG sing 420 n n O3' HO3' UPG sing 421 n n O4' HO4' UPG sing 422 n n O6' HO6' UPG sing 423 n n # _atom_sites.entry_id 4HO6 _atom_sites.fract_transf_matrix[1][1] 0.010924 _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] 0.010924 _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] 0.014796 _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 UPG A 1 300 300 UPG UPG . C 3 UTP A 1 301 301 UTP UTP . D 4 SO4 A 1 302 302 SO4 SO4 . E 4 SO4 A 1 303 303 SO4 SO4 . F 5 HOH A 1 401 1 HOH HOH . F 5 HOH A 2 402 2 HOH HOH . F 5 HOH A 3 403 3 HOH HOH . F 5 HOH A 4 404 4 HOH HOH . F 5 HOH A 5 405 5 HOH HOH . F 5 HOH A 6 406 6 HOH HOH . F 5 HOH A 7 407 7 HOH HOH . F 5 HOH A 8 408 8 HOH HOH . F 5 HOH A 9 409 9 HOH HOH . F 5 HOH A 10 410 10 HOH HOH . F 5 HOH A 11 411 11 HOH HOH . F 5 HOH A 12 412 12 HOH HOH . F 5 HOH A 13 413 13 HOH HOH . F 5 HOH A 14 414 14 HOH HOH . F 5 HOH A 15 415 15 HOH HOH . F 5 HOH A 16 416 16 HOH HOH . F 5 HOH A 17 417 17 HOH HOH . F 5 HOH A 18 418 18 HOH HOH . F 5 HOH A 19 419 19 HOH HOH . F 5 HOH A 20 420 20 HOH HOH . F 5 HOH A 21 421 21 HOH HOH . F 5 HOH A 22 422 22 HOH HOH . F 5 HOH A 23 423 23 HOH HOH . F 5 HOH A 24 424 24 HOH HOH . F 5 HOH A 25 425 25 HOH HOH . F 5 HOH A 26 426 26 HOH HOH . F 5 HOH A 27 427 27 HOH HOH . F 5 HOH A 28 428 28 HOH HOH . F 5 HOH A 29 429 29 HOH HOH . F 5 HOH A 30 430 30 HOH HOH . F 5 HOH A 31 431 31 HOH HOH . F 5 HOH A 32 432 32 HOH HOH . F 5 HOH A 33 433 33 HOH HOH . F 5 HOH A 34 434 34 HOH HOH . F 5 HOH A 35 435 35 HOH HOH . F 5 HOH A 36 436 36 HOH HOH . F 5 HOH A 37 437 37 HOH HOH . F 5 HOH A 38 438 38 HOH HOH . F 5 HOH A 39 439 39 HOH HOH . F 5 HOH A 40 440 40 HOH HOH . F 5 HOH A 41 441 41 HOH HOH . F 5 HOH A 42 442 42 HOH HOH . F 5 HOH A 43 443 43 HOH HOH . F 5 HOH A 44 444 44 HOH HOH . F 5 HOH A 45 445 45 HOH HOH . F 5 HOH A 46 446 46 HOH HOH . F 5 HOH A 47 447 47 HOH HOH . F 5 HOH A 48 448 48 HOH HOH . F 5 HOH A 49 449 49 HOH HOH . F 5 HOH A 50 450 50 HOH HOH . F 5 HOH A 51 451 51 HOH HOH . F 5 HOH A 52 452 52 HOH HOH . F 5 HOH A 53 453 53 HOH HOH . F 5 HOH A 54 454 54 HOH HOH . F 5 HOH A 55 455 55 HOH HOH . F 5 HOH A 56 456 56 HOH HOH . F 5 HOH A 57 457 57 HOH HOH . F 5 HOH A 58 458 58 HOH HOH . F 5 HOH A 59 459 59 HOH HOH . F 5 HOH A 60 460 60 HOH HOH . F 5 HOH A 61 461 61 HOH HOH . F 5 HOH A 62 462 62 HOH HOH . F 5 HOH A 63 463 63 HOH HOH . F 5 HOH A 64 464 64 HOH HOH . F 5 HOH A 65 465 65 HOH HOH . F 5 HOH A 66 466 66 HOH HOH . F 5 HOH A 67 467 67 HOH HOH . F 5 HOH A 68 468 68 HOH HOH . F 5 HOH A 69 469 69 HOH HOH . F 5 HOH A 70 470 70 HOH HOH . F 5 HOH A 71 471 71 HOH HOH . F 5 HOH A 72 472 72 HOH HOH . F 5 HOH A 73 473 73 HOH HOH . F 5 HOH A 74 474 74 HOH HOH . F 5 HOH A 75 475 75 HOH HOH . F 5 HOH A 76 476 76 HOH HOH . F 5 HOH A 77 477 77 HOH HOH . F 5 HOH A 78 478 78 HOH HOH . F 5 HOH A 79 479 79 HOH HOH . F 5 HOH A 80 480 80 HOH HOH . F 5 HOH A 81 481 81 HOH HOH . F 5 HOH A 82 482 82 HOH HOH . F 5 HOH A 83 483 83 HOH HOH . F 5 HOH A 84 484 84 HOH HOH . F 5 HOH A 85 485 85 HOH HOH . F 5 HOH A 86 486 86 HOH HOH . F 5 HOH A 87 487 87 HOH HOH . F 5 HOH A 88 488 88 HOH HOH . F 5 HOH A 89 489 89 HOH HOH . F 5 HOH A 90 490 90 HOH HOH . F 5 HOH A 91 491 91 HOH HOH . F 5 HOH A 92 492 92 HOH HOH . F 5 HOH A 93 493 93 HOH HOH . F 5 HOH A 94 494 94 HOH HOH . F 5 HOH A 95 495 95 HOH HOH . F 5 HOH A 96 496 96 HOH HOH . F 5 HOH A 97 497 97 HOH HOH . F 5 HOH A 98 498 98 HOH HOH . F 5 HOH A 99 499 99 HOH HOH . F 5 HOH A 100 500 100 HOH HOH . F 5 HOH A 101 501 101 HOH HOH . F 5 HOH A 102 502 102 HOH HOH . F 5 HOH A 103 503 103 HOH HOH . F 5 HOH A 104 504 104 HOH HOH . F 5 HOH A 105 505 105 HOH HOH . F 5 HOH A 106 506 106 HOH HOH . F 5 HOH A 107 507 107 HOH HOH . F 5 HOH A 108 508 108 HOH HOH . F 5 HOH A 109 509 109 HOH HOH . F 5 HOH A 110 510 110 HOH HOH . F 5 HOH A 111 511 111 HOH HOH . F 5 HOH A 112 512 112 HOH HOH . F 5 HOH A 113 513 113 HOH HOH . F 5 HOH A 114 514 114 HOH HOH . F 5 HOH A 115 515 115 HOH HOH . F 5 HOH A 116 516 116 HOH HOH . F 5 HOH A 117 517 117 HOH HOH . F 5 HOH A 118 518 118 HOH HOH . F 5 HOH A 119 519 119 HOH HOH . F 5 HOH A 120 520 120 HOH HOH . F 5 HOH A 121 521 121 HOH HOH . F 5 HOH A 122 522 122 HOH HOH . F 5 HOH A 123 523 123 HOH HOH . F 5 HOH A 124 524 124 HOH HOH . F 5 HOH A 125 525 125 HOH HOH . F 5 HOH A 126 526 126 HOH HOH . F 5 HOH A 127 527 127 HOH HOH . F 5 HOH A 128 528 128 HOH HOH . F 5 HOH A 129 529 129 HOH HOH . F 5 HOH A 130 530 130 HOH HOH . F 5 HOH A 131 531 131 HOH HOH . F 5 HOH A 132 532 132 HOH HOH . F 5 HOH A 133 533 133 HOH HOH . F 5 HOH A 134 534 134 HOH HOH . F 5 HOH A 135 535 135 HOH HOH . F 5 HOH A 136 536 136 HOH HOH . F 5 HOH A 137 537 137 HOH HOH . F 5 HOH A 138 538 138 HOH HOH . F 5 HOH A 139 539 139 HOH HOH . F 5 HOH A 140 540 140 HOH HOH . F 5 HOH A 141 541 141 HOH HOH . F 5 HOH A 142 542 142 HOH HOH . F 5 HOH A 143 543 143 HOH HOH . F 5 HOH A 144 544 144 HOH HOH . F 5 HOH A 145 545 145 HOH HOH . F 5 HOH A 146 546 146 HOH HOH . F 5 HOH A 147 547 147 HOH HOH . F 5 HOH A 148 548 148 HOH HOH . F 5 HOH A 149 549 149 HOH HOH . F 5 HOH A 150 550 150 HOH HOH . F 5 HOH A 151 551 151 HOH HOH . F 5 HOH A 152 552 152 HOH HOH . F 5 HOH A 153 553 153 HOH HOH . F 5 HOH A 154 554 154 HOH HOH . F 5 HOH A 155 555 155 HOH HOH . F 5 HOH A 156 556 156 HOH HOH . F 5 HOH A 157 557 157 HOH HOH . F 5 HOH A 158 558 158 HOH HOH . F 5 HOH A 159 559 159 HOH HOH . F 5 HOH A 160 560 160 HOH HOH . F 5 HOH A 161 561 161 HOH HOH . F 5 HOH A 162 562 162 HOH HOH . F 5 HOH A 163 563 163 HOH HOH . F 5 HOH A 164 564 164 HOH HOH . F 5 HOH A 165 565 165 HOH HOH . F 5 HOH A 166 566 166 HOH HOH . F 5 HOH A 167 567 167 HOH HOH . F 5 HOH A 168 568 168 HOH HOH . F 5 HOH A 169 569 169 HOH HOH . F 5 HOH A 170 570 170 HOH HOH . F 5 HOH A 171 571 171 HOH HOH . F 5 HOH A 172 572 172 HOH HOH . F 5 HOH A 173 573 173 HOH HOH . F 5 HOH A 174 574 174 HOH HOH . F 5 HOH A 175 575 175 HOH HOH . F 5 HOH A 176 576 176 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 UPG . . . B 2 -2.262 -18.139 -21.19 1 23.4 ? N1 UPG 300 A 1 HETATM 2 C C2 UPG . . . B 2 -1.828 -17.918 -22.493 1 24.79 ? C2 UPG 300 A 1 HETATM 3 N N3 UPG . . . B 2 -2.202 -18.751 -23.489 1 23.18 ? N3 UPG 300 A 1 HETATM 4 C C4 UPG . . . B 2 -2.986 -19.805 -23.213 1 24.64 ? C4 UPG 300 A 1 HETATM 5 C C5 UPG . . . B 2 -3.438 -20.074 -21.905 1 26.23 ? C5 UPG 300 A 1 HETATM 6 C C6 UPG . . . B 2 -3.058 -19.193 -20.886 1 25.94 ? C6 UPG 300 A 1 HETATM 7 O O2 UPG . . . B 2 -1.073 -16.966 -22.729 1 22.04 ? O2 UPG 300 A 1 HETATM 8 O O4 UPG . . . B 2 -3.256 -20.604 -24.123 1 27.21 ? O4 UPG 300 A 1 HETATM 9 C C1C UPG . . . B 2 -1.85 -17.202 -20.139 1 26.16 ? C1C UPG 300 A 1 HETATM 10 C C2C UPG . . . B 2 -2.993 -16.588 -19.343 1 22.87 ? C2C UPG 300 A 1 HETATM 11 O O2C UPG . . . B 2 -3.514 -15.39 -19.92 1 25.1 ? O2C UPG 300 A 1 HETATM 12 C C3C UPG . . . B 2 -2.321 -16.284 -18.017 1 26.02 ? C3C UPG 300 A 1 HETATM 13 C C4C UPG . . . B 2 -1.344 -17.446 -17.859 1 25.86 ? C4C UPG 300 A 1 HETATM 14 O O4C UPG . . . B 2 -1.156 -17.977 -19.173 1 24.64 ? O4C UPG 300 A 1 HETATM 15 O O3C UPG . . . B 2 -1.571 -15.044 -18.1 1 24.62 ? O3C UPG 300 A 1 HETATM 16 C C5C UPG . . . B 2 -1.885 -18.577 -17.001 1 27.72 ? C5C UPG 300 A 1 HETATM 17 O O5C UPG . . . B 2 -3.224 -18.918 -17.381 1 31.13 ? O5C UPG 300 A 1 HETATM 18 P PA UPG . . . B 2 -4.353 -19.015 -16.23 1 33.33 ? PA UPG 300 A 1 HETATM 19 O O1A UPG . . . B 2 -4.276 -17.817 -15.32 1 33.1 ? O1A UPG 300 A 1 HETATM 20 O O2A UPG . . . B 2 -5.712 -19.163 -16.848 1 32.78 ? O2A UPG 300 A 1 HETATM 21 O O3A UPG . . . B 2 -3.878 -20.237 -15.335 1 29.46 ? O3A UPG 300 A 1 HETATM 22 P PB UPG . . . B 2 -4.46 -21.701 -15.419 1 31.96 ? PB UPG 300 A 1 HETATM 23 O O1B UPG . . . B 2 -4.383 -22.156 -16.852 1 29.24 ? O1B UPG 300 A 1 HETATM 24 O O2B UPG . . . B 2 -5.858 -21.792 -14.918 1 32.44 ? O2B UPG 300 A 1 HETATM 25 O O3B UPG . . . B 2 -3.353 -22.483 -14.512 1 27.91 ? O3B UPG 300 A 1 HETATM 26 C C1' UPG . . . B 2 -2.067 -22.631 -15.045 1 23.65 ? C1' UPG 300 A 1 HETATM 27 C C2' UPG . . . B 2 -1.664 -24.091 -14.9 1 21.8 ? C2' UPG 300 A 1 HETATM 28 C C3' UPG . . . B 2 -1.629 -24.445 -13.4 1 21.15 ? C3' UPG 300 A 1 HETATM 29 C C4' UPG . . . B 2 -0.674 -23.472 -12.729 1 23.76 ? C4' UPG 300 A 1 HETATM 30 C C5' UPG . . . B 2 -1.1 -22.02 -12.953 1 25.11 ? C5' UPG 300 A 1 HETATM 31 C C6' UPG . . . B 2 -0.06 -21.097 -12.355 1 29.05 ? C6' UPG 300 A 1 HETATM 32 O O2' UPG . . . B 2 -2.644 -24.887 -15.583 1 24.59 ? O2' UPG 300 A 1 HETATM 33 O O3' UPG . . . B 2 -1.101 -25.765 -13.253 1 23.89 ? O3' UPG 300 A 1 HETATM 34 O O4' UPG . . . B 2 -0.599 -23.739 -11.317 1 22.21 ? O4' UPG 300 A 1 HETATM 35 O O5' UPG . . . B 2 -1.194 -21.73 -14.349 1 24.54 ? O5' UPG 300 A 1 HETATM 36 O O6' UPG . . . B 2 -0.704 -19.845 -12.302 1 33.27 ? O6' UPG 300 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #