data_1Z7E # _model_server_result.job_id aolkXdIMdk-507-pIHrryg _model_server_result.datetime_utc '2024-11-10 03:28:27' _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 1z7e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1103}' # _entry.id 1Z7E # _exptl.entry_id 1Z7E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 580.285 _entity.id 3 _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1Z7E _cell.length_a 151.689 _cell.length_b 166.227 _cell.length_c 261.992 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Z7E _symmetry.cell_setting orthorhombic _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 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,M,N,O,P,Q,R _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 ? 3 H N N ? 3 J N N ? 3 L N N ? 3 N N N ? 3 P N N ? 3 R 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 405 n n C1' O5' UGA sing 406 n n C1' O3B UGA sing 407 n n C1' "H1'1" UGA sing 408 n n C2' O2' UGA sing 409 n n C2' C3' UGA sing 410 n n C2' "H2'1" UGA sing 411 n n O2' "HO'2" UGA sing 412 n n C3' O3' UGA sing 413 n n C3' C4' UGA sing 414 n n C3' "H3'1" UGA sing 415 n n O3' "HO'3" UGA sing 416 n n C4' O4' UGA sing 417 n n C4' C5' UGA sing 418 n n C4' "H4'1" UGA sing 419 n n O4' "HO'4" UGA sing 420 n n C5' O5' UGA sing 421 n n C5' C6' UGA sing 422 n n C5' "H5'1" UGA sing 423 n n C6' "O'P" UGA doub 424 n n C6' "O'Q" UGA sing 425 n n "O'Q" "HO'6" UGA sing 426 n n PB O1B UGA doub 427 n n PB O2B UGA sing 428 n n PB O3B UGA sing 429 n n PB O3A UGA sing 430 n n O2B HOB2 UGA sing 431 n n O3A PA UGA sing 432 n n PA O1A UGA doub 433 n n PA O2A UGA sing 434 n n PA O5D UGA sing 435 n n O2A HOA2 UGA sing 436 n n O5D C5D UGA sing 437 n n C5D C4D UGA sing 438 n n C5D H5A1 UGA sing 439 n n C5D "H5'2" UGA sing 440 n n C4D O4D UGA sing 441 n n C4D C3D UGA sing 442 n n C4D H4A1 UGA sing 443 n n O4D C1D UGA sing 444 n n C3D O3D UGA sing 445 n n C3D C2D UGA sing 446 n n C3D H3A1 UGA sing 447 n n O3D HOA3 UGA sing 448 n n C2D O2D UGA sing 449 n n C2D C1D UGA sing 450 n n C2D H2A1 UGA sing 451 n n O2D HOC2 UGA sing 452 n n C1D N1 UGA sing 453 n n C1D H1A1 UGA sing 454 n n N1 C6 UGA sing 455 n y N1 C2 UGA sing 456 n y C6 C5 UGA doub 457 n y C6 H61 UGA sing 458 n n C2 O2 UGA doub 459 n n C2 N3 UGA sing 460 n y N3 C4 UGA sing 461 n y N3 HN3 UGA sing 462 n n C4 O4 UGA doub 463 n n C4 C5 UGA sing 464 n y C5 H51 UGA sing 465 n n # _atom_sites.entry_id 1Z7E _atom_sites.fract_transf_matrix[1][1] 0.006592 _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] 0.006016 _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] 0.003817 _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 ATP A 1 1001 1001 ATP ATP . H 3 UGA A 1 1101 1101 UGA UGA . I 2 ATP B 1 1002 1002 ATP ATP . J 3 UGA B 1 1102 1102 UGA UGA . K 2 ATP C 1 1003 1003 ATP ATP . L 3 UGA C 1 1103 1103 UGA UGA . M 2 ATP D 1 1004 1004 ATP ATP . N 3 UGA D 1 1104 1104 UGA UGA . O 2 ATP E 1 1005 1005 ATP ATP . P 3 UGA E 1 1105 1105 UGA UGA . Q 2 ATP F 1 1006 1006 ATP ATP . R 3 UGA F 1 1106 1106 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 . . . L 3 141.688 -5.914 100.871 1 54.69 ? C1' UGA 1103 C 1 HETATM 2 C C2' UGA . . . L 3 141.652 -5.065 99.588 1 56.39 ? C2' UGA 1103 C 1 HETATM 3 O O2' UGA . . . L 3 142.575 -3.997 99.699 1 57.42 ? O2' UGA 1103 C 1 HETATM 4 C C3' UGA . . . L 3 140.277 -4.472 99.303 1 58.63 ? C3' UGA 1103 C 1 HETATM 5 O O3' UGA . . . L 3 140.276 -3.941 97.99 1 61.46 ? O3' UGA 1103 C 1 HETATM 6 C C4' UGA . . . L 3 139.208 -5.53 99.391 1 59.61 ? C4' UGA 1103 C 1 HETATM 7 O O4' UGA . . . L 3 137.927 -4.959 99.181 1 61.72 ? O4' UGA 1103 C 1 HETATM 8 C C5' UGA . . . L 3 139.268 -6.194 100.747 1 59.91 ? C5' UGA 1103 C 1 HETATM 9 O O5' UGA . . . L 3 140.562 -6.815 100.886 1 59.13 ? O5' UGA 1103 C 1 HETATM 10 C C6' UGA . . . L 3 138.228 -7.32 100.765 1 61.28 ? C6' UGA 1103 C 1 HETATM 11 O "O'P" UGA . . . L 3 138.397 -8.332 99.988 1 62.13 ? "O'P" UGA 1103 C 1 HETATM 12 O "O'Q" UGA . . . L 3 137.095 -7.042 101.243 1 61.62 ? "O'Q" UGA 1103 C 1 HETATM 13 P PB UGA . . . L 3 142.058 -5.481 103.55 1 39.4 ? PB UGA 1103 C 1 HETATM 14 O O1B UGA . . . L 3 141.113 -6.578 103.953 1 38.96 ? O1B UGA 1103 C 1 HETATM 15 O O2B UGA . . . L 3 142.099 -4.22 104.363 1 39.44 ? O2B UGA 1103 C 1 HETATM 16 O O3B UGA . . . L 3 141.834 -5.008 101.998 1 46.37 ? O3B UGA 1103 C 1 HETATM 17 O O3A UGA . . . L 3 143.586 -5.953 103.729 1 35.92 ? O3A UGA 1103 C 1 HETATM 18 P PA UGA . . . L 3 144.302 -7.403 103.744 1 31.88 ? PA UGA 1103 C 1 HETATM 19 O O1A UGA . . . L 3 145.616 -7.281 103.027 1 31.19 ? O1A UGA 1103 C 1 HETATM 20 O O2A UGA . . . L 3 143.293 -8.401 103.224 1 31.2 ? O2A UGA 1103 C 1 HETATM 21 O O5D UGA . . . L 3 144.59 -7.693 105.283 1 33.81 ? O5D UGA 1103 C 1 HETATM 22 C C5D UGA . . . L 3 143.685 -7.277 106.301 1 34.93 ? C5D UGA 1103 C 1 HETATM 23 C C4D UGA . . . L 3 144.458 -6.637 107.423 1 36.83 ? C4D UGA 1103 C 1 HETATM 24 O O4D UGA . . . L 3 145.3 -7.632 108.038 1 36.73 ? O4D UGA 1103 C 1 HETATM 25 C C3D UGA . . . L 3 145.464 -5.611 106.936 1 39.9 ? C3D UGA 1103 C 1 HETATM 26 O O3D UGA . . . L 3 144.843 -4.349 106.747 1 47.71 ? O3D UGA 1103 C 1 HETATM 27 C C2D UGA . . . L 3 146.486 -5.565 108.058 1 38.11 ? C2D UGA 1103 C 1 HETATM 28 O O2D UGA . . . L 3 146.127 -4.705 109.1 1 38.75 ? O2D UGA 1103 C 1 HETATM 29 C C1D UGA . . . L 3 146.459 -7.004 108.56 1 37.49 ? C1D UGA 1103 C 1 HETATM 30 N N1 UGA . . . L 3 147.656 -7.741 108.14 1 36.21 ? N1 UGA 1103 C 1 HETATM 31 C C6 UGA . . . L 3 147.887 -8.072 106.826 1 34.79 ? C6 UGA 1103 C 1 HETATM 32 C C2 UGA . . . L 3 148.561 -8.069 109.128 1 35.39 ? C2 UGA 1103 C 1 HETATM 33 O O2 UGA . . . L 3 148.386 -7.792 110.298 1 34.48 ? O2 UGA 1103 C 1 HETATM 34 N N3 UGA . . . L 3 149.681 -8.727 108.698 1 36.31 ? N3 UGA 1103 C 1 HETATM 35 C C4 UGA . . . L 3 149.988 -9.084 107.402 1 36.25 ? C4 UGA 1103 C 1 HETATM 36 O O4 UGA . . . L 3 151.042 -9.693 107.179 1 35.52 ? O4 UGA 1103 C 1 HETATM 37 C C5 UGA . . . L 3 148.995 -8.711 106.43 1 35.45 ? C5 UGA 1103 C 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 248 _model_server_stats.query_time_ms 418 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 37 #