data_1MP5 # _model_server_result.job_id Vhu8b3dT4wJkG0jfCLqtDA _model_server_result.datetime_utc '2025-07-31 06:40:48' _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 1mp5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 1MP5 # _exptl.entry_id 1MP5 _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 4 _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 1MP5 _cell.length_a 91.7 _cell.length_b 111.22 _cell.length_c 131.15 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1MP5 _symmetry.cell_setting ? _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 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,H _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 E N N ? 2 F N N ? 2 G N N ? 2 H N 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 356 n n N1 C6 UPG sing 357 n n N1 C1C UPG sing 358 n n C2 N3 UPG sing 359 n n C2 O2 UPG doub 360 n n N3 C4 UPG sing 361 n n N3 HN3 UPG sing 362 n n C4 C5 UPG sing 363 n n C4 O4 UPG doub 364 n n C5 C6 UPG doub 365 n n C5 H5 UPG sing 366 n n C6 H6 UPG sing 367 n n C1C C2C UPG sing 368 n n C1C O4C UPG sing 369 n n C1C H1C UPG sing 370 n n C2C O2C UPG sing 371 n n C2C C3C UPG sing 372 n n C2C H2C UPG sing 373 n n O2C HO2C UPG sing 374 n n C3C C4C UPG sing 375 n n C3C O3C UPG sing 376 n n C3C H3C UPG sing 377 n n C4C O4C UPG sing 378 n n C4C C5C UPG sing 379 n n C4C H4C UPG sing 380 n n O3C HO3C UPG sing 381 n n C5C O5C UPG sing 382 n n C5C H5C1 UPG sing 383 n n C5C H5C2 UPG sing 384 n n O5C PA UPG sing 385 n n PA O1A UPG doub 386 n n PA O2A UPG sing 387 n n PA O3A UPG sing 388 n n O2A HOA2 UPG sing 389 n n O3A PB UPG sing 390 n n PB O1B UPG doub 391 n n PB O2B UPG sing 392 n n PB O3B UPG sing 393 n n O2B HOB2 UPG sing 394 n n O3B C1' UPG sing 395 n n C1' C2' UPG sing 396 n n C1' O5' UPG sing 397 n n C1' H1' UPG sing 398 n n C2' C3' UPG sing 399 n n C2' O2' UPG sing 400 n n C2' H2' UPG sing 401 n n C3' C4' UPG sing 402 n n C3' O3' UPG sing 403 n n C3' H3' UPG sing 404 n n C4' C5' UPG sing 405 n n C4' O4' UPG sing 406 n n C4' H4' UPG sing 407 n n C5' C6' UPG sing 408 n n C5' O5' UPG sing 409 n n C5' H5' UPG sing 410 n n C6' O6' UPG sing 411 n n C6' "H6'1" UPG sing 412 n n C6' "H6'2" UPG sing 413 n n O2' HO2' UPG sing 414 n n O3' HO3' UPG sing 415 n n O4' HO4' UPG sing 416 n n O6' HO6' UPG sing 417 n n # _atom_sites.entry_id 1MP5 _atom_sites.fract_transf_matrix[1][1] 0.010905 _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] 0.008991 _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] 0.007625 _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 E 2 UPG A 1 501 501 UPG UDP . F 2 UPG B 1 502 502 UPG UDP . G 2 UPG C 1 503 503 UPG UDP . H 2 UPG D 1 504 504 UPG UDP . # 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 . . . E 2 1.794 55.921 59.542 1 53.28 ? N1 UPG 501 A 1 HETATM 2 C C2 UPG . . . E 2 2.1 54.876 60.422 1 52.12 ? C2 UPG 501 A 1 HETATM 3 N N3 UPG . . . E 2 2.575 55.25 61.656 1 51.77 ? N3 UPG 501 A 1 HETATM 4 C C4 UPG . . . E 2 2.784 56.56 62.116 1 52.44 ? C4 UPG 501 A 1 HETATM 5 C C5 UPG . . . E 2 2.451 57.583 61.164 1 53.1 ? C5 UPG 501 A 1 HETATM 6 C C6 UPG . . . E 2 1.985 57.264 59.954 1 53.31 ? C6 UPG 501 A 1 HETATM 7 O O2 UPG . . . E 2 1.933 53.716 60.063 1 51.48 ? O2 UPG 501 A 1 HETATM 8 O O4 UPG . . . E 2 3.213 56.723 63.23 1 51.85 ? O4 UPG 501 A 1 HETATM 9 C C1C UPG . . . E 2 1.261 55.555 58.198 1 54.63 ? C1C UPG 501 A 1 HETATM 10 C C2C UPG . . . E 2 -0.18 56.001 58.035 1 55.26 ? C2C UPG 501 A 1 HETATM 11 O O2C UPG . . . E 2 -1.113 55.24 58.822 1 52.1 ? O2C UPG 501 A 1 HETATM 12 C C3C UPG . . . E 2 -0.371 55.893 56.515 1 56.37 ? C3C UPG 501 A 1 HETATM 13 C C4C UPG . . . E 2 1.061 56.143 55.993 1 57.07 ? C4C UPG 501 A 1 HETATM 14 O O4C UPG . . . E 2 1.937 56.178 57.167 1 55.67 ? O4C UPG 501 A 1 HETATM 15 O O3C UPG . . . E 2 -1.125 54.742 56.072 1 58.35 ? O3C UPG 501 A 1 HETATM 16 C C5C UPG . . . E 2 1.351 57.463 55.262 1 59.2 ? C5C UPG 501 A 1 HETATM 17 O O5C UPG . . . E 2 0.322 58.487 55.368 1 60.04 ? O5C UPG 501 A 1 HETATM 18 P PA UPG . . . E 2 0.598 59.805 56.27 1 60.3 ? PA UPG 501 A 1 HETATM 19 O O1A UPG . . . E 2 0.88 59.506 57.72 1 60 ? O1A UPG 501 A 1 HETATM 20 O O2A UPG . . . E 2 -0.533 60.802 56.327 1 59.2 ? O2A UPG 501 A 1 HETATM 21 O O3A UPG . . . E 2 1.925 60.459 55.507 1 56.23 ? O3A UPG 501 A 1 HETATM 22 P PB UPG . . . E 2 2.688 61.662 56.314 1 53.85 ? PB UPG 501 A 1 HETATM 23 O O1B UPG . . . E 2 1.735 62.909 56.322 1 50.97 ? O1B UPG 501 A 1 HETATM 24 O O2B UPG . . . E 2 3.055 61.155 57.63 1 51.63 ? O2B UPG 501 A 1 HETATM 25 O O3B UPG . . . E 2 4.073 61.943 55.49 1 52.13 ? O3B UPG 501 A 1 HETATM 26 C C1' UPG . . . E 2 5.205 61.083 55.358 1 51.75 ? C1' UPG 501 A 1 HETATM 27 C C2' UPG . . . E 2 6.54 61.84 54.995 1 51.55 ? C2' UPG 501 A 1 HETATM 28 C C3' UPG . . . E 2 6.432 62.502 53.545 1 51.19 ? C3' UPG 501 A 1 HETATM 29 C C4' UPG . . . E 2 6.175 61.423 52.537 1 50.92 ? C4' UPG 501 A 1 HETATM 30 C C5' UPG . . . E 2 4.871 60.621 52.855 1 50.66 ? C5' UPG 501 A 1 HETATM 31 C C6' UPG . . . E 2 4.65 59.541 51.823 1 49.94 ? C6' UPG 501 A 1 HETATM 32 O O2' UPG . . . E 2 6.895 62.865 55.925 1 52.25 ? O2' UPG 501 A 1 HETATM 33 O O3' UPG . . . E 2 7.636 63.193 53.165 1 50.34 ? O3' UPG 501 A 1 HETATM 34 O O4' UPG . . . E 2 6.078 62.064 51.29 1 52.6 ? O4' UPG 501 A 1 HETATM 35 O O5' UPG . . . E 2 4.945 60.047 54.222 1 51.33 ? O5' UPG 501 A 1 HETATM 36 O O6' UPG . . . E 2 3.284 59.485 51.454 1 53.07 ? O6' UPG 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 36 #