data_1MP5
#
_model_server_result.job_id            lzxa0K44Lq08DGzwtQ9A2w 
_model_server_result.datetime_utc      '2025-08-01 02:52:19' 
_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":"G","auth_seq_id":503}' 
#
_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 . . . G 2 -23.274 71.648 20.366 1 71.09 ? N1 UPG 503 C 1 
HETATM 2 C C2 UPG . . . G 2 -21.945 72.049 19.977 1 72.75 ? C2 UPG 503 C 1 
HETATM 3 N N3 UPG . . . G 2 -21.562 73.346 20.335 1 74.68 ? N3 UPG 503 C 1 
HETATM 4 C C4 UPG . . . G 2 -22.324 74.3 21.03 1 75.75 ? C4 UPG 503 C 1 
HETATM 5 C C5 UPG . . . G 2 -23.634 73.84 21.391 1 75.49 ? C5 UPG 503 C 1 
HETATM 6 C C6 UPG . . . G 2 -24.079 72.6 21.082 1 73.94 ? C6 UPG 503 C 1 
HETATM 7 O O2 UPG . . . G 2 -21.225 71.277 19.373 1 74.25 ? O2 UPG 503 C 1 
HETATM 8 O O4 UPG . . . G 2 -21.867 75.407 21.269 1 76.04 ? O4 UPG 503 C 1 
HETATM 9 C C1C UPG . . . G 2 -23.808 70.206 20.026 1 64.41 ? C1C UPG 503 C 1 
HETATM 10 C C2C UPG . . . G 2 -23.052 69.088 20.82 1 61.22 ? C2C UPG 503 C 1 
HETATM 11 O O2C UPG . . . G 2 -21.901 68.544 20.164 1 62.74 ? O2C UPG 503 C 1 
HETATM 12 C C3C UPG . . . G 2 -24.16 68.046 21.133 1 58.1 ? C3C UPG 503 C 1 
HETATM 13 C C4C UPG . . . G 2 -25.378 68.937 21.31 1 54.26 ? C4C UPG 503 C 1 
HETATM 14 O O4C UPG . . . G 2 -25.183 70.054 20.349 1 58.54 ? O4C UPG 503 C 1 
HETATM 15 O O3C UPG . . . G 2 -24.19 66.862 20.313 1 59.43 ? O3C UPG 503 C 1 
HETATM 16 C C5C UPG . . . G 2 -25.554 69.611 22.711 1 48.35 ? C5C UPG 503 C 1 
HETATM 17 O O5C UPG . . . G 2 -24.522 69.317 23.719 1 40.23 ? O5C UPG 503 C 1 
HETATM 18 P PA UPG . . . G 2 -24.097 70.404 24.893 1 35.17 ? PA UPG 503 C 1 
HETATM 19 O O1A UPG . . . G 2 -23.556 71.691 24.343 1 36.11 ? O1A UPG 503 C 1 
HETATM 20 O O2A UPG . . . G 2 -23.012 69.949 25.827 1 35.93 ? O2A UPG 503 C 1 
HETATM 21 O O3A UPG . . . G 2 -25.491 70.629 25.738 1 32.28 ? O3A UPG 503 C 1 
HETATM 22 P PB UPG . . . G 2 -25.77 72.111 26.371 1 30.98 ? PB UPG 503 C 1 
HETATM 23 O O1B UPG . . . G 2 -24.551 72.534 27.268 1 31.78 ? O1B UPG 503 C 1 
HETATM 24 O O2B UPG . . . G 2 -26.054 72.996 25.273 1 35 ? O2B UPG 503 C 1 
HETATM 25 O O3B UPG . . . G 2 -27.144 71.966 27.205 1 31.37 ? O3B UPG 503 C 1 
HETATM 26 C C1' UPG . . . G 2 -28.371 71.436 26.728 1 30.93 ? C1' UPG 503 C 1 
HETATM 27 C C2' UPG . . . G 2 -29.597 71.976 27.525 1 31.13 ? C2' UPG 503 C 1 
HETATM 28 C C3' UPG . . . G 2 -29.489 71.563 29.046 1 30.48 ? C3' UPG 503 C 1 
HETATM 29 C C4' UPG . . . G 2 -29.334 70.094 29.205 1 28.22 ? C4' UPG 503 C 1 
HETATM 30 C C5' UPG . . . G 2 -28.114 69.551 28.394 1 28.9 ? C5' UPG 503 C 1 
HETATM 31 C C6' UPG . . . G 2 -27.975 68.058 28.589 1 29.43 ? C6' UPG 503 C 1 
HETATM 32 O O2' UPG . . . G 2 -29.668 73.393 27.547 1 32.78 ? O2' UPG 503 C 1 
HETATM 33 O O3' UPG . . . G 2 -30.615 71.998 29.82 1 32.62 ? O3' UPG 503 C 1 
HETATM 34 O O4' UPG . . . G 2 -29.135 69.887 30.558 1 26.71 ? O4' UPG 503 C 1 
HETATM 35 O O5' UPG . . . G 2 -28.268 69.921 26.958 1 29.47 ? O5' UPG 503 C 1 
HETATM 36 O O6' UPG . . . G 2 -28.91 67.394 27.772 1 35.24 ? O6' UPG 503 C 1 
#
_model_server_stats.io_time_ms              53 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           252 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           36 
#