data_8GJH # _model_server_result.job_id dcD7SIKZiGq0lvC6pn_Mlg _model_server_result.datetime_utc '2024-12-01 11:06:22' _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 8gjh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":1100}' # _entry.id 8GJH # _exptl.entry_id 8GJH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 580.285 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE-5'-DIPHOSPHATE-GLUCURONIC ACID" _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 62.99 _cell.angle_beta 71.66 _cell.angle_gamma 77.76 _cell.entry_id 8GJH _cell.length_a 90.826 _cell.length_b 129.439 _cell.length_c 140.188 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GJH _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,H,I,J,K,L _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N # _chem_comp.formula 'C15 H22 N2 O18 P2' _chem_comp.formula_weight 580.285 _chem_comp.id UGA _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE-5'-DIPHOSPHATE-GLUCURONIC ACID" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'UDP-GLUCURONIC ACID' # 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' C2' UGA sing 356 n n C1' O5' UGA sing 357 n n C1' O3B UGA sing 358 n n C1' "H1'1" UGA sing 359 n n C2' O2' UGA sing 360 n n C2' C3' UGA sing 361 n n C2' "H2'1" UGA sing 362 n n O2' "HO'2" UGA sing 363 n n C3' O3' UGA sing 364 n n C3' C4' UGA sing 365 n n C3' "H3'1" UGA sing 366 n n O3' "HO'3" UGA sing 367 n n C4' O4' UGA sing 368 n n C4' C5' UGA sing 369 n n C4' "H4'1" UGA sing 370 n n O4' "HO'4" UGA sing 371 n n C5' O5' UGA sing 372 n n C5' C6' UGA sing 373 n n C5' "H5'1" UGA sing 374 n n C6' "O'P" UGA doub 375 n n C6' "O'Q" UGA sing 376 n n "O'Q" "HO'6" UGA sing 377 n n PB O1B UGA doub 378 n n PB O2B UGA sing 379 n n PB O3B UGA sing 380 n n PB O3A UGA sing 381 n n O2B HOB2 UGA sing 382 n n O3A PA UGA sing 383 n n PA O1A UGA doub 384 n n PA O2A UGA sing 385 n n PA O5D UGA sing 386 n n O2A HOA2 UGA sing 387 n n O5D C5D UGA sing 388 n n C5D C4D UGA sing 389 n n C5D H5A1 UGA sing 390 n n C5D "H5'2" UGA sing 391 n n C4D O4D UGA sing 392 n n C4D C3D UGA sing 393 n n C4D H4A1 UGA sing 394 n n O4D C1D UGA sing 395 n n C3D O3D UGA sing 396 n n C3D C2D UGA sing 397 n n C3D H3A1 UGA sing 398 n n O3D HOA3 UGA sing 399 n n C2D O2D UGA sing 400 n n C2D C1D UGA sing 401 n n C2D H2A1 UGA sing 402 n n O2D HOC2 UGA sing 403 n n C1D N1 UGA sing 404 n n C1D H1A1 UGA sing 405 n n N1 C6 UGA sing 406 n y N1 C2 UGA sing 407 n y C6 C5 UGA doub 408 n y C6 H61 UGA sing 409 n n C2 O2 UGA doub 410 n n C2 N3 UGA sing 411 n y N3 C4 UGA sing 412 n y N3 HN3 UGA sing 413 n n C4 O4 UGA doub 414 n n C4 C5 UGA sing 415 n y C5 H51 UGA sing 416 n n # _atom_sites.entry_id 8GJH _atom_sites.fract_transf_matrix[1][1] 0.01101 _atom_sites.fract_transf_matrix[1][2] -0.002389 _atom_sites.fract_transf_matrix[1][3] -0.002919 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007905 _atom_sites.fract_transf_matrix[2][3] -0.003634 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008271 _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 G 2 UGA A 1 1100 1100 UGA UGA . H 2 UGA B 1 1100 1100 UGA UGA . I 2 UGA C 1 1100 1100 UGA UGA . J 2 UGA D 1 1100 1100 UGA UGA . K 2 UGA E 1 1100 1100 UGA UGA . L 2 UGA F 1 1100 1100 UGA UGA . # 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' UGA . . . G 2 -33.835 35.09 114.76 1 117.32 ? C1' UGA 1100 A 1 HETATM 2 C C2' UGA . . . G 2 -33.885 36.144 115.852 1 104.15 ? C2' UGA 1100 A 1 HETATM 3 O O2' UGA . . . G 2 -33.172 37.246 115.423 1 104.6 ? O2' UGA 1100 A 1 HETATM 4 C C3' UGA . . . G 2 -33.312 35.699 117.148 1 103.87 ? C3' UGA 1100 A 1 HETATM 5 O O3' UGA . . . G 2 -33.732 36.575 118.14 1 105.94 ? O3' UGA 1100 A 1 HETATM 6 C C4' UGA . . . G 2 -33.796 34.351 117.5 1 111.02 ? C4' UGA 1100 A 1 HETATM 7 O O4' UGA . . . G 2 -33.187 33.933 118.674 1 107.38 ? O4' UGA 1100 A 1 HETATM 8 C C5' UGA . . . G 2 -33.432 33.408 116.411 1 119.64 ? C5' UGA 1100 A 1 HETATM 9 O O5' UGA . . . G 2 -33.993 33.77 115.203 1 125.92 ? O5' UGA 1100 A 1 HETATM 10 C C6' UGA . . . G 2 -33.965 32.061 116.784 1 128.86 ? C6' UGA 1100 A 1 HETATM 11 O "O'P" UGA . . . G 2 -34.957 32.193 117.548 1 129.24 ? "O'P" UGA 1100 A 1 HETATM 12 O "O'Q" UGA . . . G 2 -33.272 31.17 116.227 1 132.85 ? "O'Q" UGA 1100 A 1 HETATM 13 P PB UGA . . . G 2 -32.871 35.186 112.41 1 105.06 ? PB UGA 1100 A 1 HETATM 14 O O1B UGA . . . G 2 -33.372 33.809 112.04 1 104.32 ? O1B UGA 1100 A 1 HETATM 15 O O2B UGA . . . G 2 -31.553 35.438 111.724 1 105.21 ? O2B UGA 1100 A 1 HETATM 16 O O3B UGA . . . G 2 -32.689 35.27 113.976 1 114.33 ? O3B UGA 1100 A 1 HETATM 17 O O3A UGA . . . G 2 -33.909 36.297 111.988 1 102.89 ? O3A UGA 1100 A 1 HETATM 18 P PA UGA . . . G 2 -35.289 35.961 111.302 1 103.16 ? PA UGA 1100 A 1 HETATM 19 O O1A UGA . . . G 2 -36.223 37.12 111.581 1 104.37 ? O1A UGA 1100 A 1 HETATM 20 O O2A UGA . . . G 2 -35.889 34.696 111.874 1 109.85 ? O2A UGA 1100 A 1 HETATM 21 O O5D UGA . . . G 2 -35.121 35.836 109.742 1 121.84 ? O5D UGA 1100 A 1 HETATM 22 C C5D UGA . . . G 2 -34.443 34.758 109.181 1 115.74 ? C5D UGA 1100 A 1 HETATM 23 C C4D UGA . . . G 2 -33.552 35.313 108.097 1 114.38 ? C4D UGA 1100 A 1 HETATM 24 O O4D UGA . . . G 2 -34.242 35.385 106.884 1 106.43 ? O4D UGA 1100 A 1 HETATM 25 C C3D UGA . . . G 2 -33.1 36.693 108.436 1 122.01 ? C3D UGA 1100 A 1 HETATM 26 O O3D UGA . . . G 2 -31.856 36.681 109.01 1 126.76 ? O3D UGA 1100 A 1 HETATM 27 C C2D UGA . . . G 2 -33.087 37.414 107.155 1 117.22 ? C2D UGA 1100 A 1 HETATM 28 O O2D UGA . . . G 2 -31.795 37.547 106.686 1 106.38 ? O2D UGA 1100 A 1 HETATM 29 C C1D UGA . . . G 2 -33.925 36.586 106.243 1 118.5 ? C1D UGA 1100 A 1 HETATM 30 N N1 UGA . . . G 2 -35.123 37.286 105.796 1 112.5 ? N1 UGA 1100 A 1 HETATM 31 C C6 UGA . . . G 2 -36.194 37.408 106.634 1 107.75 ? C6 UGA 1100 A 1 HETATM 32 C C2 UGA . . . G 2 -35.177 37.823 104.548 1 114.44 ? C2 UGA 1100 A 1 HETATM 33 O O2 UGA . . . G 2 -34.226 37.716 103.795 1 116.3 ? O2 UGA 1100 A 1 HETATM 34 N N3 UGA . . . G 2 -36.286 38.476 104.129 1 110.57 ? N3 UGA 1100 A 1 HETATM 35 C C4 UGA . . . G 2 -37.349 38.609 104.927 1 103.51 ? C4 UGA 1100 A 1 HETATM 36 O O4 UGA . . . G 2 -38.341 39.203 104.526 1 103.29 ? O4 UGA 1100 A 1 HETATM 37 C C5 UGA . . . G 2 -37.33 38.081 106.194 1 103.13 ? C5 UGA 1100 A 1 # _model_server_stats.io_time_ms 171 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 37 #