data_7MII
#
_model_server_result.job_id            5NN9RNk-1rgRu1HEG4c--Q 
_model_server_result.datetime_utc      '2024-11-22 23:29:20' 
_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          7mii 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":603}' 
#
_entry.id    7MII 
#
_exptl.entry_id    7MII 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              484.141 
_entity.id                          3 
_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            7MII 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7MII 
_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_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    ? 
_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 F N N 
? 3 K N N 
? 3 N N N 
? 3 S 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 F O2A UTP . A UTP 602 1_555 I MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc2 F O2B UTP . A UTP 602 1_555 I MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc3 F O3B UTP . A UTP 602 1_555 I MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? 
metalc ? metalc4 F O1G UTP . A UTP 602 1_555 I MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc5 F O2G UTP . A UTP 602 1_555 I MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc6 H MG MG . A MG 604 1_555 K O2G UTP . B UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc7 H MG MG . A MG 604 1_555 K O1A UTP . B UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc8 H MG MG . A MG 604 1_555 K O3G UTP . B UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
metalc ? metalc9 H MG MG . A MG 604 1_555 K O1B UTP . B UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc10 H MG MG . A MG 604 1_555 K O3B UTP . B UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? 
metalc ? metalc11 N O1A UTP . C UTP 602 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc12 N O1B UTP . C UTP 602 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc13 N O3B UTP . C UTP 602 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? 
metalc ? metalc14 N O2G UTP . C UTP 602 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? 
metalc ? metalc15 N O3G UTP . C UTP 602 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? 
metalc ? metalc16 P MG MG . C MG 604 1_555 S O2A UTP . E UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc17 P MG MG . C MG 604 1_555 S O2B UTP . E UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? 
metalc ? metalc18 P MG MG . C MG 604 1_555 S O3B UTP . E UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? 
metalc ? metalc19 P MG MG . C MG 604 1_555 S O1G UTP . E UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc20 P MG MG . C MG 604 1_555 S O2G UTP . E UTP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? 
#
_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                     7MII 
_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 ZFY A 1 601 1 ZFY LIG . 
F 3 UTP A 1 602 602 UTP UTP . 
G 4 GLN A 1 603 611 GLN GLN . 
H 5 MG A 1 604 1 MG MG . 
I 5 MG B 1 601 1 MG MG . 
J 2 ZFY B 1 602 1 ZFY LIG . 
K 3 UTP B 1 603 602 UTP UTP . 
L 4 GLN B 1 604 611 GLN GLN . 
M 2 ZFY C 1 601 1 ZFY LIG . 
N 3 UTP C 1 602 602 UTP UTP . 
O 4 GLN C 1 603 611 GLN GLN . 
P 5 MG C 1 604 1 MG MG . 
Q 5 MG E 1 601 1 MG MG . 
R 2 ZFY E 1 602 1 ZFY LIG . 
S 3 UTP E 1 603 602 UTP UTP . 
T 4 GLN E 1 604 611 GLN GLN . 
#
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 . . . S 3 173.421 170.156 158.618 1 26.88 ? PA UTP 603 E 1 
HETATM 2 O O1A UTP . . . S 3 173.451 169.181 157.47 1 26.88 ? O1A UTP 603 E 1 
HETATM 3 O O2A UTP . . . S 3 174.619 170.983 159.037 1 26.88 ? O2A UTP 603 E 1 
HETATM 4 O O3A UTP . . . S 3 172.874 169.333 159.982 1 26.88 ? O3A UTP 603 E 1 
HETATM 5 O O5' UTP . . . S 3 172.065 171.18 158.409 1 26.88 ? O5' UTP 603 E 1 
HETATM 6 P PB UTP . . . S 3 173.159 169.324 161.634 1 26.88 ? PB UTP 603 E 1 
HETATM 7 O O1B UTP . . . S 3 171.887 168.93 162.341 1 26.88 ? O1B UTP 603 E 1 
HETATM 8 O O2B UTP . . . S 3 173.967 170.57 161.926 1 26.88 ? O2B UTP 603 E 1 
HETATM 9 O O3B UTP . . . S 3 174.231 168.039 161.629 1 26.88 ? O3B UTP 603 E 1 
HETATM 10 P PG UTP . . . S 3 175.89 168.031 161.22 1 26.88 ? PG UTP 603 E 1 
HETATM 11 O O1G UTP . . . S 3 176.522 169.112 162.104 1 26.88 ? O1G UTP 603 E 1 
HETATM 12 O O2G UTP . . . S 3 175.969 168.536 159.777 1 26.88 ? O2G UTP 603 E 1 
HETATM 13 O O3G UTP . . . S 3 176.412 166.617 161.421 1 26.88 ? O3G UTP 603 E 1 
HETATM 14 C C5' UTP . . . S 3 171.791 172.168 159.388 1 26.88 ? C5' UTP 603 E 1 
HETATM 15 C C4' UTP . . . S 3 170.753 173.158 158.831 1 26.88 ? C4' UTP 603 E 1 
HETATM 16 O O4' UTP . . . S 3 171.37 173.844 157.747 1 26.88 ? O4' UTP 603 E 1 
HETATM 17 C C1' UTP . . . S 3 170.639 173.662 156.573 1 26.88 ? C1' UTP 603 E 1 
HETATM 18 C C2' UTP . . . S 3 169.835 172.358 156.757 1 26.88 ? C2' UTP 603 E 1 
HETATM 19 O O2' UTP . . . S 3 168.773 172.18 155.823 1 26.88 ? O2' UTP 603 E 1 
HETATM 20 C C3' UTP . . . S 3 169.482 172.514 158.238 1 26.88 ? C3' UTP 603 E 1 
HETATM 21 O O3' UTP . . . S 3 168.315 173.293 158.483 1 26.88 ? O3' UTP 603 E 1 
HETATM 22 N N1 UTP . . . S 3 171.552 173.733 155.445 1 26.88 ? N1 UTP 603 E 1 
HETATM 23 C C6 UTP . . . S 3 172.623 172.871 155.374 1 26.88 ? C6 UTP 603 E 1 
HETATM 24 C C2 UTP . . . S 3 171.338 174.681 154.475 1 26.88 ? C2 UTP 603 E 1 
HETATM 25 O O2 UTP . . . S 3 170.479 175.55 154.464 1 26.88 ? O2 UTP 603 E 1 
HETATM 26 N N3 UTP . . . S 3 172.202 174.61 153.437 1 26.88 ? N3 UTP 603 E 1 
HETATM 27 C C4 UTP . . . S 3 173.216 173.753 153.215 1 26.88 ? C4 UTP 603 E 1 
HETATM 28 O O4 UTP . . . S 3 173.825 173.734 152.157 1 26.88 ? O4 UTP 603 E 1 
HETATM 29 C C5 UTP . . . S 3 173.454 172.848 154.317 1 26.88 ? C5 UTP 603 E 1 
HETATM 30 H "H5'1" UTP . . . S 3 171.396 171.693 160.286 1 0 ? "H5'1" UTP 603 E 1 
HETATM 31 H "H5'2" UTP . . . S 3 172.709 172.703 159.633 1 0 ? "H5'2" UTP 603 E 1 
HETATM 32 H H4' UTP . . . S 3 170.475 173.872 159.606 1 0 ? H4' UTP 603 E 1 
HETATM 33 H H1' UTP . . . S 3 169.93 174.485 156.486 1 0 ? H1' UTP 603 E 1 
HETATM 34 H H2' UTP . . . S 3 170.522 171.518 156.656 1 0 ? H2' UTP 603 E 1 
HETATM 35 H HA UTP . . . S 3 168.773 171.272 155.508 1 0 ? HA UTP 603 E 1 
HETATM 36 H H3' UTP . . . S 3 169.347 171.525 158.676 1 0 ? H3' UTP 603 E 1 
HETATM 37 H HB UTP . . . S 3 167.547 172.839 158.128 1 0 ? HB UTP 603 E 1 
HETATM 38 H H6 UTP . . . S 3 172.801 172.19 156.193 1 0 ? H6 UTP 603 E 1 
HETATM 39 H H3 UTP . . . S 3 172.065 175.305 152.718 1 0 ? H3 UTP 603 E 1 
HETATM 40 H H5 UTP . . . S 3 174.287 172.163 154.292 1 0 ? H5 UTP 603 E 1 
#
_model_server_stats.io_time_ms              15 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    32 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           40 
#