data_3N0B # _model_server_result.job_id yn0E2buPR1wz6fZa8NHbPw _model_server_result.datetime_utc '2025-06-21 18:58:39' _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 3n0b # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":318}' # _entry.id 3N0B # _exptl.entry_id 3N0B _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 90 _cell.angle_gamma 90 _cell.entry_id 3N0B _cell.length_a 54.523 _cell.length_b 116.754 _cell.length_c 141.053 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N0B _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _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 _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 ? 2 E N N ? 2 G N N ? 2 J N N ? 2 L N N # _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 449 n n N1 C6 UMP sing 450 n n N1 C1' UMP sing 451 n n C2 N3 UMP sing 452 n n C2 O2 UMP doub 453 n n N3 C4 UMP sing 454 n n N3 HN3 UMP sing 455 n n C4 C5 UMP sing 456 n n C4 O4 UMP doub 457 n n C5 C6 UMP doub 458 n n C5 H5 UMP sing 459 n n C6 H6 UMP sing 460 n n C1' C2' UMP sing 461 n n C1' O4' UMP sing 462 n n C1' H1' UMP sing 463 n n C2' C3' UMP sing 464 n n C2' H2' UMP sing 465 n n C2' "H2''" UMP sing 466 n n C3' C4' UMP sing 467 n n C3' O3' UMP sing 468 n n C3' H3' UMP sing 469 n n C4' O4' UMP sing 470 n n C4' C5' UMP sing 471 n n C4' H4' UMP sing 472 n n O3' HO3' UMP sing 473 n n C5' O5' UMP sing 474 n n C5' H5' UMP sing 475 n n C5' "H5''" UMP sing 476 n n O5' P UMP sing 477 n n P OP1 UMP doub 478 n n P OP2 UMP sing 479 n n P OP3 UMP sing 480 n n OP2 HOP2 UMP sing 481 n n OP3 HOP3 UMP sing 482 n n # _atom_sites.entry_id 3N0B _atom_sites.fract_transf_matrix[1][1] 0.018341 _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] 0.008565 _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] 0.00709 _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 1 303 303 UMP UMP . F 3 FAD A 1 315 315 FAD FAD . G 2 UMP B 1 308 308 UMP UMP . H 3 FAD B 1 310 310 FAD FAD . I 3 FAD C 1 305 305 FAD FAD . J 2 UMP C 1 313 313 UMP UMP . K 3 FAD D 1 300 300 FAD FAD . L 2 UMP D 1 318 318 UMP UMP . M 4 HOH A 1 221 4 HOH HOH . M 4 HOH A 2 222 15 HOH HOH . M 4 HOH A 3 223 16 HOH HOH . M 4 HOH A 4 224 19 HOH HOH . M 4 HOH A 5 225 20 HOH HOH . M 4 HOH A 6 226 24 HOH HOH . M 4 HOH A 7 227 27 HOH HOH . M 4 HOH A 8 228 28 HOH HOH . M 4 HOH A 9 229 29 HOH HOH . M 4 HOH A 10 230 31 HOH HOH . M 4 HOH A 11 231 33 HOH HOH . M 4 HOH A 12 232 35 HOH HOH . M 4 HOH A 13 233 38 HOH HOH . N 4 HOH B 1 221 2 HOH HOH . N 4 HOH B 2 222 7 HOH HOH . N 4 HOH B 3 223 14 HOH HOH . N 4 HOH B 4 224 17 HOH HOH . N 4 HOH B 5 225 18 HOH HOH . N 4 HOH B 6 226 21 HOH HOH . N 4 HOH B 7 227 25 HOH HOH . N 4 HOH B 8 228 26 HOH HOH . N 4 HOH B 9 229 32 HOH HOH . N 4 HOH B 10 230 39 HOH HOH . O 4 HOH C 1 221 3 HOH HOH . O 4 HOH C 2 222 5 HOH HOH . O 4 HOH C 3 223 8 HOH HOH . O 4 HOH C 4 224 9 HOH HOH . O 4 HOH C 5 225 10 HOH HOH . O 4 HOH C 6 226 22 HOH HOH . O 4 HOH C 7 227 23 HOH HOH . O 4 HOH C 8 228 36 HOH HOH . O 4 HOH C 9 229 37 HOH HOH . P 4 HOH D 1 221 1 HOH HOH . P 4 HOH D 2 222 6 HOH HOH . P 4 HOH D 3 223 11 HOH HOH . P 4 HOH D 4 224 12 HOH HOH . P 4 HOH D 5 225 13 HOH HOH . P 4 HOH D 6 226 30 HOH HOH . P 4 HOH D 7 227 34 HOH HOH . # 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 . . . L 2 25.14 49.876 130.24 1 54.03 ? N1 UMP 318 D 1 HETATM 2 C C2 UMP . . . L 2 24.889 50.698 129.106 1 53.21 ? C2 UMP 318 D 1 HETATM 3 N N3 UMP . . . L 2 23.761 51.426 129.08 1 53.47 ? N3 UMP 318 D 1 HETATM 4 C C4 UMP . . . L 2 22.873 51.388 130.081 1 54.11 ? C4 UMP 318 D 1 HETATM 5 C C5 UMP . . . L 2 23.091 50.579 131.213 1 53.76 ? C5 UMP 318 D 1 HETATM 6 C C6 UMP . . . L 2 24.257 49.813 131.267 1 52.79 ? C6 UMP 318 D 1 HETATM 7 O O2 UMP . . . L 2 25.709 50.758 128.147 1 49.35 ? O2 UMP 318 D 1 HETATM 8 O O4 UMP . . . L 2 21.838 52.079 129.958 1 55.19 ? O4 UMP 318 D 1 HETATM 9 C C1' UMP . . . L 2 26.371 49.1 130.259 1 53.11 ? C1' UMP 318 D 1 HETATM 10 C C2' UMP . . . L 2 27.569 50.045 130.352 1 53.61 ? C2' UMP 318 D 1 HETATM 11 C C3' UMP . . . L 2 28.391 49.519 131.501 1 54.51 ? C3' UMP 318 D 1 HETATM 12 C C4' UMP . . . L 2 27.422 48.593 132.262 1 55.91 ? C4' UMP 318 D 1 HETATM 13 O O3' UMP . . . L 2 29.513 48.812 130.943 1 53.83 ? O3' UMP 318 D 1 HETATM 14 O O4' UMP . . . L 2 26.317 48.261 131.406 1 53.41 ? O4' UMP 318 D 1 HETATM 15 C C5' UMP . . . L 2 26.851 49.224 133.542 1 56.22 ? C5' UMP 318 D 1 HETATM 16 O O5' UMP . . . L 2 26.273 50.504 133.277 1 55.03 ? O5' UMP 318 D 1 HETATM 17 P P UMP . . . L 2 25.431 51.288 134.396 1 56.39 ? P UMP 318 D 1 HETATM 18 O OP1 UMP . . . L 2 25.303 52.719 133.876 1 53.43 ? OP1 UMP 318 D 1 HETATM 19 O OP2 UMP . . . L 2 24.084 50.608 134.431 1 56.82 ? OP2 UMP 318 D 1 HETATM 20 O OP3 UMP . . . L 2 26.24 51.02 135.632 1 54.8 ? OP3 UMP 318 D 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #