data_1JUJ # _model_server_result.job_id Te6itQPceXJMsoUwWOvWdw _model_server_result.datetime_utc '2024-11-27 01:20:49' _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":"E","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 . . . E 2 -46.474 -52.145 -2.231 1 21.03 ? N1 UMP 314 A 1 HETATM 2 C C2 UMP . . . E 2 -45.14 -52.403 -2.418 1 16.04 ? C2 UMP 314 A 1 HETATM 3 N N3 UMP . . . E 2 -44.579 -53.342 -1.597 1 20.64 ? N3 UMP 314 A 1 HETATM 4 C C4 UMP . . . E 2 -45.24 -53.968 -0.562 1 21.98 ? C4 UMP 314 A 1 HETATM 5 C C5 UMP . . . E 2 -46.711 -53.71 -0.301 1 21.92 ? C5 UMP 314 A 1 HETATM 6 C C6 UMP . . . E 2 -47.409 -52.981 -1.457 1 21.52 ? C6 UMP 314 A 1 HETATM 7 O O2 UMP . . . E 2 -44.494 -51.818 -3.287 1 15.38 ? O2 UMP 314 A 1 HETATM 8 O O4 UMP . . . E 2 -44.614 -54.746 0.156 1 19.65 ? O4 UMP 314 A 1 HETATM 9 C C1' UMP . . . E 2 -47.06 -50.989 -2.861 1 19.89 ? C1' UMP 314 A 1 HETATM 10 C C2' UMP . . . E 2 -47.65 -51.402 -4.204 1 16.82 ? C2' UMP 314 A 1 HETATM 11 C C3' UMP . . . E 2 -48.648 -50.283 -4.439 1 17.94 ? C3' UMP 314 A 1 HETATM 12 C C4' UMP . . . E 2 -49.366 -50.088 -3.104 1 14.48 ? C4' UMP 314 A 1 HETATM 13 O O3' UMP . . . E 2 -47.848 -49.128 -4.7 1 15.22 ? O3' UMP 314 A 1 HETATM 14 O O4' UMP . . . E 2 -48.272 -50.474 -2.178 1 14.84 ? O4' UMP 314 A 1 HETATM 15 C C5' UMP . . . E 2 -50.519 -51.073 -2.953 1 12.31 ? C5' UMP 314 A 1 HETATM 16 O O5' UMP . . . E 2 -51.498 -50.573 -3.883 1 20.76 ? O5' UMP 314 A 1 HETATM 17 P P UMP . . . E 2 -52.533 -51.502 -4.516 1 18.59 ? P UMP 314 A 1 HETATM 18 O OP1 UMP . . . E 2 -53.586 -50.668 -5.118 1 17.57 ? OP1 UMP 314 A 1 HETATM 19 O OP2 UMP . . . E 2 -51.748 -52.279 -5.497 1 21.05 ? OP2 UMP 314 A 1 HETATM 20 O OP3 UMP . . . E 2 -53.177 -52.36 -3.524 1 17.87 ? OP3 UMP 314 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 20 #