data_8UVA
#
_model_server_result.job_id            AaXXmUBtWVuR-MwTWdGoFg 
_model_server_result.datetime_utc      '2025-07-07 16:11:05' 
_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          8uva 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":603}' 
#
_entry.id    8UVA 
#
_exptl.entry_id    8UVA 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              484.141 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "URIDINE 5'-TRIPHOSPHATE" 
_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            8UVA 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8UVA 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_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,I,J,K,L,M,N,O,P,Q,R,S,T 
_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
? 4 G N N 
? 4 K N N 
? 4 N N N 
? 4 R 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 G O2A UTP . A UTP 603 1_555 H MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? 
metalc ? metalc2 G O2B UTP . A UTP 603 1_555 H MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc3 G O3G UTP . A UTP 603 1_555 H MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? 
metalc ? metalc4 K O2A UTP . B UTP 603 1_555 L MG MG . B MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.824 ? 
metalc ? metalc5 K O2B UTP . B UTP 603 1_555 L MG MG . B MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? 
metalc ? metalc6 K O3G UTP . B UTP 603 1_555 L MG MG . B MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? 
metalc ? metalc7 N O1A UTP . C UTP 602 1_555 O MG MG . C MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.864 ? 
metalc ? metalc8 N O1B UTP . C UTP 602 1_555 O MG MG . C MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc9 N O1G UTP . C UTP 602 1_555 O MG MG . C MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? 
metalc ? metalc10 R O1A UTP . D UTP 602 1_555 S MG MG . D MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.843 ? 
metalc ? metalc11 R O1B UTP . D UTP 602 1_555 S MG MG . D MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? 
metalc ? metalc12 R O1G UTP . D UTP 602 1_555 S MG MG . D MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
#
_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                     8UVA 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 GLN A 1 601 611 GLN GLN . 
F 3 XMW A 1 602 1 XMW LIG . 
G 4 UTP A 1 603 602 UTP UTP . 
H 5 MG A 1 604 4 MG MG . 
I 2 GLN B 1 601 611 GLN GLN . 
J 3 XMW B 1 602 1 XMW LIG . 
K 4 UTP B 1 603 602 UTP UTP . 
L 5 MG B 1 604 4 MG MG . 
M 2 GLN C 1 601 611 GLN GLN . 
N 4 UTP C 1 602 602 UTP UTP . 
O 5 MG C 1 603 4 MG MG . 
P 3 XMW C 1 604 1 XMW LIG . 
Q 2 GLN D 1 601 611 GLN GLN . 
R 4 UTP D 1 602 602 UTP UTP . 
S 5 MG D 1 603 4 MG MG . 
T 3 XMW D 1 604 1 XMW LIG . 
#
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 . . . G 4 135.778 138.455 153.386 1 29.82 ? PA UTP 603 A 1 
HETATM 2 O O1A UTP . . . G 4 135.445 139.396 152.332 1 29.82 ? O1A UTP 603 A 1 
HETATM 3 O O2A UTP . . . G 4 134.556 137.676 153.435 1 29.82 ? O2A UTP 603 A 1 
HETATM 4 O O3A UTP . . . G 4 136.059 139.251 154.795 1 29.82 ? O3A UTP 603 A 1 
HETATM 5 O O5' UTP . . . G 4 137.074 137.519 152.998 1 29.82 ? O5' UTP 603 A 1 
HETATM 6 P PB UTP . . . G 4 134.977 139.294 156.024 1 29.82 ? PB UTP 603 A 1 
HETATM 7 O O1B UTP . . . G 4 135.616 138.946 157.281 1 29.82 ? O1B UTP 603 A 1 
HETATM 8 O O2B UTP . . . G 4 133.988 138.236 155.883 1 29.82 ? O2B UTP 603 A 1 
HETATM 9 O O3B UTP . . . G 4 134.252 140.764 156.116 1 29.82 ? O3B UTP 603 A 1 
HETATM 10 P PG UTP . . . G 4 132.664 141 155.785 1 29.82 ? PG UTP 603 A 1 
HETATM 11 O O1G UTP . . . G 4 131.865 141.484 156.895 1 29.82 ? O1G UTP 603 A 1 
HETATM 12 O O2G UTP . . . G 4 132.443 141.973 154.735 1 29.82 ? O2G UTP 603 A 1 
HETATM 13 O O3G UTP . . . G 4 131.957 139.813 155.332 1 29.82 ? O3G UTP 603 A 1 
HETATM 14 C C5' UTP . . . G 4 137.298 136.34 153.716 1 29.82 ? C5' UTP 603 A 1 
HETATM 15 C C4' UTP . . . G 4 138.232 135.454 152.951 1 29.82 ? C4' UTP 603 A 1 
HETATM 16 O O4' UTP . . . G 4 137.559 134.856 151.813 1 29.82 ? O4' UTP 603 A 1 
HETATM 17 C C1' UTP . . . G 4 138.311 135.175 150.615 1 29.82 ? C1' UTP 603 A 1 
HETATM 18 C C2' UTP . . . G 4 139.031 136.443 150.97 1 29.82 ? C2' UTP 603 A 1 
HETATM 19 O O2' UTP . . . G 4 140.236 136.62 150.236 1 29.82 ? O2' UTP 603 A 1 
HETATM 20 C C3' UTP . . . G 4 139.352 136.275 152.4 1 29.82 ? C3' UTP 603 A 1 
HETATM 21 O O3' UTP . . . G 4 140.584 135.574 152.543 1 29.82 ? O3' UTP 603 A 1 
HETATM 22 N N1 UTP . . . G 4 137.457 135.321 149.472 1 29.82 ? N1 UTP 603 A 1 
HETATM 23 C C6 UTP . . . G 4 137.379 134.283 148.282 1 29.82 ? C6 UTP 603 A 1 
HETATM 24 C C2 UTP . . . G 4 136.509 136.462 149.211 1 29.82 ? C2 UTP 603 A 1 
HETATM 25 O O2 UTP . . . G 4 136.431 137.336 149.999 1 29.82 ? O2 UTP 603 A 1 
HETATM 26 N N3 UTP . . . G 4 135.694 136.538 148.039 1 29.82 ? N3 UTP 603 A 1 
HETATM 27 C C4 UTP . . . G 4 135.713 135.611 147.104 1 29.82 ? C4 UTP 603 A 1 
HETATM 28 O O4 UTP . . . G 4 135.01 135.724 146.158 1 29.82 ? O4 UTP 603 A 1 
HETATM 29 C C5 UTP . . . G 4 136.579 134.455 147.231 1 29.82 ? C5 UTP 603 A 1 
HETATM 30 H "H5'1" UTP . . . G 4 136.357 135.827 153.879 1 29.82 ? "H5'1" UTP 603 A 1 
HETATM 31 H "H5'2" UTP . . . G 4 137.75 136.584 154.672 1 29.82 ? "H5'2" UTP 603 A 1 
HETATM 32 H H4' UTP . . . G 4 138.627 134.677 153.594 1 29.82 ? H4' UTP 603 A 1 
HETATM 33 H H1' UTP . . . G 4 139.034 134.391 150.431 1 29.82 ? H1' UTP 603 A 1 
HETATM 34 H H2' UTP . . . G 4 138.385 137.3 150.839 1 29.82 ? H2' UTP 603 A 1 
HETATM 35 H HA UTP . . . G 4 140.973 136.577 150.823 1 29.82 ? HA UTP 603 A 1 
HETATM 36 H H3' UTP . . . G 4 139.398 137.239 152.893 1 29.82 ? H3' UTP 603 A 1 
HETATM 37 H HB UTP . . . G 4 141.239 136.153 152.898 1 29.82 ? HB UTP 603 A 1 
HETATM 38 H H6 UTP . . . G 4 138.006 133.401 148.319 1 29.82 ? H6 UTP 603 A 1 
HETATM 39 H H3 UTP . . . G 4 135.084 137.324 147.926 1 29.82 ? H3 UTP 603 A 1 
HETATM 40 H H5 UTP . . . G 4 136.572 133.708 146.447 1 29.82 ? H5 UTP 603 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    52 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           40 
#