data_5WU2
#
_model_server_result.job_id            1KJ7tsLjrM0fM9AP4-YMGw 
_model_server_result.datetime_utc      '2024-11-04 20:08:20' 
_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          5wu2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":1001}' 
#
_entry.id    5WU2 
#
_exptl.entry_id    5WU2 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              484.141 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDINE 5'-TRIPHOSPHATE" 
_entity.pdbx_number_of_molecules    2 
_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            5WU2 
_cell.length_a            77.33 
_cell.length_b            88.4 
_cell.length_c            184.19 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5WU2 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_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,C,D,E 1 1 
B,F,G,H 2 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 C N N 
? 2 F N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 A OD2 ASP 79 A ASP 218 1_555 D BA BA . A BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? 
metalc ? metalc2 C O1A UTP . A UTP 1001 1_555 D BA BA . A BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? 
metalc ? metalc3 C O2B UTP . A UTP 1001 1_555 D BA BA . A BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? 
metalc ? metalc4 C O1G UTP . A UTP 1001 1_555 D BA BA . A BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.212 ? 
metalc ? metalc5 C O2G UTP . A UTP 1001 1_555 D BA BA . A BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.053 ? 
metalc ? metalc6 B OD1 ASP 79 B ASP 218 1_555 G BA BA . B BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.438 ? 
metalc ? metalc7 B OD2 ASP 79 B ASP 218 1_555 G BA BA . B BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.961 ? 
metalc ? metalc8 F O1A UTP . B UTP 1001 1_555 G BA BA . B BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.837 ? 
metalc ? metalc9 F O2B UTP . B UTP 1001 1_555 G BA BA . B BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.743 ? 
metalc ? metalc10 F O2G UTP . B UTP 1001 1_555 G BA BA . B BA 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.882 ? 
#
_chem_comp.formula           'C9 H15 N2 O15 P3' 
_chem_comp.formula_weight    484.141 
_chem_comp.id                UTP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "URIDINE 5'-TRIPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
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
PA O1A UTP doub 356 n n 
PA O2A UTP sing 357 n n 
PA O3A UTP sing 358 n n 
PA O5' UTP sing 359 n n 
O2A H2A UTP sing 360 n n 
O3A PB UTP sing 361 n n 
O5' C5' UTP sing 362 n n 
PB O1B UTP sing 363 n n 
PB O2B UTP doub 364 n n 
PB O3B UTP sing 365 n n 
O1B H1B UTP sing 366 n n 
O3B PG UTP sing 367 n n 
PG O1G UTP sing 368 n n 
PG O2G UTP doub 369 n n 
PG O3G UTP sing 370 n n 
O1G H1G UTP sing 371 n n 
O3G H3G UTP sing 372 n n 
C5' C4' UTP sing 373 n n 
C5' "H5'1" UTP sing 374 n n 
C5' "H5'2" UTP sing 375 n n 
C4' O4' UTP sing 376 n n 
C4' C3' UTP sing 377 n n 
C4' H4' UTP sing 378 n n 
O4' C1' UTP sing 379 n n 
C1' C2' UTP sing 380 n n 
C1' N1 UTP sing 381 n n 
C1' H1' UTP sing 382 n n 
C2' O2' UTP sing 383 n n 
C2' C3' UTP sing 384 n n 
C2' H2' UTP sing 385 n n 
O2' HA UTP sing 386 n n 
C3' O3' UTP sing 387 n n 
C3' H3' UTP sing 388 n n 
O3' HB UTP sing 389 n n 
N1 C6 UTP sing 390 n y 
N1 C2 UTP sing 391 n y 
C6 C5 UTP doub 392 n y 
C6 H6 UTP sing 393 n n 
C2 O2 UTP doub 394 n n 
C2 N3 UTP sing 395 n y 
N3 C4 UTP sing 396 n y 
N3 H3 UTP sing 397 n n 
C4 O4 UTP doub 398 n n 
C4 C5 UTP sing 399 n y 
C5 H5 UTP sing 400 n n 
#
_atom_sites.entry_id                     5WU2 
_atom_sites.fract_transf_matrix[1][1]    0.012932 
_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]    0.011312 
_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]    0.005429 
_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
C 2 UTP A 1 1001 1001 UTP UTP . 
D 3 BA A 1 1002 2001 BA BA . 
E 4 CL A 1 1003 3001 CL CL . 
F 2 UTP B 1 1001 1001 UTP UTP . 
G 3 BA B 1 1002 2001 BA BA . 
H 4 CL B 1 1003 3001 CL CL . 
#
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 P PA UTP . . . F 2 178.695 158 194.168 1 32.67 ? PA UTP 1001 B 1 
HETATM 2 O O1A UTP . . . F 2 179.011 159.183 193.289 1 36.56 ? O1A UTP 1001 B 1 
HETATM 3 O O2A UTP . . . F 2 179.816 157.112 194.646 1 42.9 1 O2A UTP 1001 B 1 
HETATM 4 O O3A UTP . . . F 2 177.891 158.512 195.473 1 73.36 ? O3A UTP 1001 B 1 
HETATM 5 O O5' UTP . . . F 2 177.678 157.111 193.3 1 41.26 ? O5' UTP 1001 B 1 
HETATM 6 P PB UTP . . . F 2 176.643 159.526 195.366 1 38.26 ? PB UTP 1001 B 1 
HETATM 7 O O1B UTP . . . F 2 175.444 158.841 195.973 1 28.05 1 O1B UTP 1001 B 1 
HETATM 8 O O2B UTP . . . F 2 176.557 160.068 193.964 1 45.23 ? O2B UTP 1001 B 1 
HETATM 9 O O3B UTP . . . F 2 177.069 160.721 196.358 1 49.07 ? O3B UTP 1001 B 1 
HETATM 10 P PG UTP . . . F 2 178.029 161.929 195.881 1 40.44 ? PG UTP 1001 B 1 
HETATM 11 O O1G UTP . . . F 2 178.709 162.365 197.154 1 44.43 1 O1G UTP 1001 B 1 
HETATM 12 O O2G UTP . . . F 2 178.959 161.328 194.861 1 56.13 ? O2G UTP 1001 B 1 
HETATM 13 O O3G UTP . . . F 2 177.094 162.952 195.288 1 46.4 ? O3G UTP 1001 B 1 
HETATM 14 C C5' UTP . . . F 2 177.523 157.4 191.914 1 29.95 ? C5' UTP 1001 B 1 
HETATM 15 C C4' UTP . . . F 2 176.623 156.37 191.242 1 26.68 ? C4' UTP 1001 B 1 
HETATM 16 O O4' UTP . . . F 2 177.419 155.536 190.398 1 28.02 ? O4' UTP 1001 B 1 
HETATM 17 C C1' UTP . . . F 2 177.11 154.156 190.592 1 34.74 ? C1' UTP 1001 B 1 
HETATM 18 C C2' UTP . . . F 2 176.028 154.082 191.652 1 33.41 ? C2' UTP 1001 B 1 
HETATM 19 O O2' UTP . . . F 2 174.747 153.784 191.019 1 37.18 ? O2' UTP 1001 B 1 
HETATM 20 C C3' UTP . . . F 2 175.977 155.461 192.273 1 27.36 ? C3' UTP 1001 B 1 
HETATM 21 O O3' UTP . . . F 2 174.646 155.842 192.516 1 28.67 ? O3' UTP 1001 B 1 
HETATM 22 N N1 UTP . . . F 2 178.308 153.469 191.099 1 39.52 ? N1 UTP 1001 B 1 
HETATM 23 C C6 UTP . . . F 2 179.287 154.188 191.723 1 38.15 ? C6 UTP 1001 B 1 
HETATM 24 C C2 UTP . . . F 2 178.439 152.105 190.944 1 36.92 ? C2 UTP 1001 B 1 
HETATM 25 O O2 UTP . . . F 2 177.553 151.467 190.38 1 40.41 ? O2 UTP 1001 B 1 
HETATM 26 N N3 UTP . . . F 2 179.562 151.458 191.422 1 35.46 ? N3 UTP 1001 B 1 
HETATM 27 C C4 UTP . . . F 2 180.555 152.177 192.056 1 41.36 ? C4 UTP 1001 B 1 
HETATM 28 O O4 UTP . . . F 2 181.558 151.61 192.485 1 50.25 ? O4 UTP 1001 B 1 
HETATM 29 C C5 UTP . . . F 2 180.42 153.551 192.21 1 37.37 ? C5 UTP 1001 B 1 
#
_model_server_stats.io_time_ms              25 
_model_server_stats.parse_time_ms           32 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           29 
#