data_1JUJ
#
_model_server_result.job_id            72B6gleC2wb-7rmTtLQrTg 
_model_server_result.datetime_utc      '2024-11-23 08:32:30' 
_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          1juj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":314}' 
#
_entry.id    1JUJ 
#
_exptl.entry_id    1JUJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              308.182 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" 
_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          110.7 
_cell.angle_gamma         90 
_cell.entry_id            1JUJ 
_cell.length_a            138.14 
_cell.length_b            98.14 
_cell.length_c            111.97 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1JUJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,B,E,F,G,H 1 1 
C,D,I,J,K,L 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 E N N 
? 2 G N N 
? 2 I N N 
? 2 K 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
covale ? covale1 A SG CYS 195 A CYS 195 1_555 E C6 UMP . A UMP 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.82 ? 
covale ? covale2 B SG CYS 195 B CYS 195 1_555 G C6 UMP . B UMP 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.82 ? 
covale ? covale3 C SG CYS 195 C CYS 195 1_555 I C6 UMP . C UMP 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.82 ? 
covale ? covale4 D SG CYS 195 D CYS 195 1_555 K C6 UMP . D UMP 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.819 ? 
#
_chem_comp.formula           'C9 H13 N2 O8 P' 
_chem_comp.formula_weight    308.182 
_chem_comp.id                UMP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DUMP 
#
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 UMP sing 410 n n 
N1 C6 UMP sing 411 n n 
N1 C1' UMP sing 412 n n 
C2 N3 UMP sing 413 n n 
C2 O2 UMP doub 414 n n 
N3 C4 UMP sing 415 n n 
N3 HN3 UMP sing 416 n n 
C4 C5 UMP sing 417 n n 
C4 O4 UMP doub 418 n n 
C5 C6 UMP doub 419 n n 
C5 H5 UMP sing 420 n n 
C6 H6 UMP sing 421 n n 
C1' C2' UMP sing 422 n n 
C1' O4' UMP sing 423 n n 
C1' H1' UMP sing 424 n n 
C2' C3' UMP sing 425 n n 
C2' H2' UMP sing 426 n n 
C2' "H2''" UMP sing 427 n n 
C3' C4' UMP sing 428 n n 
C3' O3' UMP sing 429 n n 
C3' H3' UMP sing 430 n n 
C4' O4' UMP sing 431 n n 
C4' C5' UMP sing 432 n n 
C4' H4' UMP sing 433 n n 
O3' HO3' UMP sing 434 n n 
C5' O5' UMP sing 435 n n 
C5' H5' UMP sing 436 n n 
C5' "H5''" UMP sing 437 n n 
O5' P UMP sing 438 n n 
P OP1 UMP doub 439 n n 
P OP2 UMP sing 440 n n 
P OP3 UMP sing 441 n n 
OP2 HOP2 UMP sing 442 n n 
OP3 HOP3 UMP sing 443 n n 
#
_atom_sites.entry_id                     1JUJ 
_atom_sites.fract_transf_matrix[1][1]    0.007239 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002735 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01019 
_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]    0.009547 
_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 UMP A 1 314 314 UMP UMP . 
F 3 LYA A 1 315 315 LYA LYA . 
G 2 UMP B 1 314 314 UMP UMP . 
H 3 LYA B 1 315 315 LYA LYA . 
I 2 UMP C 1 314 314 UMP UMP . 
J 3 LYA C 1 315 315 LYA LYA . 
K 2 UMP D 1 314 314 UMP UMP . 
L 3 LYA D 1 315 315 LYA LYA . 
#
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 UMP . . . K 2 -3.33 -73.714 -33.926 1 20.41 ? N1 UMP 314 D 1 
HETATM 2 C C2 UMP . . . K 2 -3.287 -72.724 -32.978 1 15.42 ? C2 UMP 314 D 1 
HETATM 3 N N3 UMP . . . K 2 -2.066 -72.152 -32.747 1 20.02 ? N3 UMP 314 D 1 
HETATM 4 C C4 UMP . . . K 2 -0.89 -72.56 -33.338 1 21.36 ? C4 UMP 314 D 1 
HETATM 5 C C5 UMP . . . K 2 -0.877 -73.658 -34.383 1 21.3 ? C5 UMP 314 D 1 
HETATM 6 C C6 UMP . . . K 2 -2.275 -74.001 -34.915 1 20.9 ? C6 UMP 314 D 1 
HETATM 7 O O2 UMP . . . K 2 -4.302 -72.374 -32.377 1 14.76 ? O2 UMP 314 D 1 
HETATM 8 O O4 UMP . . . K 2 0.161 -72.016 -33.002 1 19.03 ? O4 UMP 314 D 1 
HETATM 9 C C1' UMP . . . K 2 -4.506 -74.541 -34.025 1 19.27 ? C1' UMP 314 D 1 
HETATM 10 C C2' UMP . . . K 2 -5.449 -73.94 -35.061 1 16.2 ? C2' UMP 314 D 1 
HETATM 11 C C3' UMP . . . K 2 -6.291 -75.15 -35.422 1 17.32 ? C3' UMP 314 D 1 
HETATM 12 C C4' UMP . . . K 2 -5.301 -76.302 -35.591 1 13.86 ? C4' UMP 314 D 1 
HETATM 13 O O3' UMP . . . K 2 -7.089 -75.4 -34.264 1 14.6 ? O3' UMP 314 D 1 
HETATM 14 O O4' UMP . . . K 2 -4.261 -75.877 -34.621 1 14.22 ? O4' UMP 314 D 1 
HETATM 15 C C5' UMP . . . K 2 -4.703 -76.311 -36.993 1 11.69 ? C5' UMP 314 D 1 
HETATM 16 O O5' UMP . . . K 2 -5.802 -76.752 -37.812 1 20.14 ? O5' UMP 314 D 1 
HETATM 17 P P UMP . . . K 2 -5.891 -76.366 -39.288 1 17.97 ? P UMP 314 D 1 
HETATM 18 O OP1 UMP . . . K 2 -6.894 -77.235 -39.926 1 16.95 ? OP1 UMP 314 D 1 
HETATM 19 O OP2 UMP . . . K 2 -6.268 -74.939 -39.252 1 20.43 ? OP2 UMP 314 D 1 
HETATM 20 O OP3 UMP . . . K 2 -4.626 -76.583 -39.987 1 17.25 ? OP3 UMP 314 D 1 
#
_model_server_stats.io_time_ms              55 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           233 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           20 
#