data_1OE6 # _model_server_result.job_id 9AzhShCFJ39GrYljFRtttA _model_server_result.datetime_utc '2024-11-14 23:34:45' _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 1oe6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1282}' # _entry.id 1OE6 # _exptl.entry_id 1OE6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 142.113 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-HYDROXYMETHYL URACIL' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 118.53 _cell.angle_gamma 90 _cell.entry_id 1OE6 _cell.length_a 120.969 _cell.length_b 86.518 _cell.length_c 78.456 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1OE6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 E N N ? 4 F 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 D O3' DT 6 F DT 298 1_555 D P 3DR 7 F 3DR 299 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.665 ? covale ? covale2 D O3' 3DR 7 F 3DR 299 1_555 D P DA 8 F DA 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.655 ? hydrog WATSON-CRICK hydrog1 C N3 DC 1 E DC 281 1_555 D N1 DG 12 F DG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 C N4 DC 1 E DC 281 1_555 D O6 DG 12 F DG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 C O2 DC 1 E DC 281 1_555 D N2 DG 12 F DG 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 C N3 DC 2 E DC 282 1_555 D N1 DG 11 F DG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 C N4 DC 2 E DC 282 1_555 D O6 DG 11 F DG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 C O2 DC 2 E DC 282 1_555 D N2 DG 11 F DG 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 C N3 DC 3 E DC 283 1_555 D N1 DG 10 F DG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 C N4 DC 3 E DC 283 1_555 D O6 DG 10 F DG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 C O2 DC 3 E DC 283 1_555 D N2 DG 10 F DG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 C N1 DG 4 E DG 284 1_555 D N3 DC 9 F DC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 C N2 DG 4 E DG 284 1_555 D O2 DC 9 F DC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 C O6 DG 4 E DG 284 1_555 D N4 DC 9 F DC 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 C N3 DT 5 E DT 285 1_555 D N1 DA 8 F DA 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 C O4 DT 5 E DT 285 1_555 D N6 DA 8 F DA 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 C N1 DA 7 E DA 287 1_555 D N3 DT 6 F DT 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 C N6 DA 7 E DA 287 1_555 D O4 DT 6 F DT 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 C N1 DG 8 E DG 288 1_555 D N3 DC 5 F DC 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 C N2 DG 8 E DG 288 1_555 D O2 DC 5 F DC 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 C O6 DG 8 E DG 288 1_555 D N4 DC 5 F DC 297 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 C N3 DT 9 E DT 289 1_555 D N1 DA 4 F DA 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 C O4 DT 9 E DT 289 1_555 D N6 DA 4 F DA 296 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 C N3 DC 10 E DC 290 1_555 D N1 DG 3 F DG 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 C N4 DC 10 E DC 290 1_555 D O6 DG 3 F DG 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 C O2 DC 10 E DC 290 1_555 D N2 DG 3 F DG 295 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 C N3 DC 11 E DC 291 1_555 D N1 DG 2 F DG 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 C N4 DC 11 E DC 291 1_555 D O6 DG 2 F DG 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 C O2 DC 11 E DC 291 1_555 D N2 DG 2 F DG 294 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C5 H6 N2 O3' _chem_comp.formula_weight 142.113 _chem_comp.id HMU _chem_comp.mon_nstd_flag . _chem_comp.name '5-HYDROXYMETHYL URACIL' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 5-(HYDROXYMETHYL)PYRIMIDINE-2,4(1H,3H)-DIONE # 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 HMU sing 335 n n N1 C6 HMU sing 336 n n N1 H1 HMU sing 337 n n C2 O2 HMU doub 338 n n C2 N3 HMU sing 339 n n N3 C4 HMU sing 340 n n N3 H2 HMU sing 341 n n C4 O4 HMU doub 342 n n C4 C5 HMU sing 343 n n O3 CM5 HMU sing 344 n n O3 H3 HMU sing 345 n n C5 CM5 HMU sing 346 n n C5 C6 HMU doub 347 n n CM5 HM51 HMU sing 348 n n CM5 HM52 HMU sing 349 n n C6 H6 HMU sing 350 n n # _atom_sites.entry_id 1OE6 _atom_sites.fract_transf_matrix[1][1] 0.008267 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004494 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011558 _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] 0.014508 _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 4 HMU A 1 1282 1282 HMU HMU . F 4 HMU A 1 1283 1283 HMU HMU . G 5 GOL A 1 1284 1284 GOL GOL . H 6 IPA A 1 1285 1285 IPA IPA . I 7 HOH A 1 2001 2001 HOH HOH . I 7 HOH A 2 2002 2002 HOH HOH . I 7 HOH A 3 2003 2003 HOH HOH . I 7 HOH A 4 2004 2004 HOH HOH . I 7 HOH A 5 2005 2005 HOH HOH . I 7 HOH A 6 2006 2006 HOH HOH . I 7 HOH A 7 2007 2007 HOH HOH . I 7 HOH A 8 2008 2008 HOH HOH . I 7 HOH A 9 2009 2009 HOH HOH . I 7 HOH A 10 2010 2010 HOH HOH . I 7 HOH A 11 2011 2011 HOH HOH . I 7 HOH A 12 2012 2012 HOH HOH . I 7 HOH A 13 2013 2013 HOH HOH . I 7 HOH A 14 2014 2014 HOH HOH . I 7 HOH A 15 2015 2015 HOH HOH . I 7 HOH A 16 2016 2016 HOH HOH . I 7 HOH A 17 2017 2017 HOH HOH . I 7 HOH A 18 2018 2018 HOH HOH . I 7 HOH A 19 2019 2019 HOH HOH . I 7 HOH A 20 2020 2020 HOH HOH . I 7 HOH A 21 2021 2021 HOH HOH . I 7 HOH A 22 2022 2022 HOH HOH . I 7 HOH A 23 2023 2023 HOH HOH . I 7 HOH A 24 2024 2024 HOH HOH . I 7 HOH A 25 2025 2025 HOH HOH . I 7 HOH A 26 2026 2026 HOH HOH . I 7 HOH A 27 2027 2027 HOH HOH . I 7 HOH A 28 2028 2028 HOH HOH . I 7 HOH A 29 2029 2029 HOH HOH . I 7 HOH A 30 2030 2030 HOH HOH . I 7 HOH A 31 2031 2031 HOH HOH . I 7 HOH A 32 2032 2032 HOH HOH . I 7 HOH A 33 2033 2033 HOH HOH . I 7 HOH A 34 2034 2034 HOH HOH . I 7 HOH A 35 2035 2035 HOH HOH . I 7 HOH A 36 2036 2036 HOH HOH . I 7 HOH A 37 2037 2037 HOH HOH . I 7 HOH A 38 2038 2038 HOH HOH . I 7 HOH A 39 2039 2039 HOH HOH . I 7 HOH A 40 2040 2040 HOH HOH . I 7 HOH A 41 2041 2041 HOH HOH . I 7 HOH A 42 2042 2042 HOH HOH . I 7 HOH A 43 2043 2043 HOH HOH . I 7 HOH A 44 2044 2044 HOH HOH . I 7 HOH A 45 2045 2045 HOH HOH . I 7 HOH A 46 2046 2046 HOH HOH . I 7 HOH A 47 2047 2047 HOH HOH . I 7 HOH A 48 2048 2048 HOH HOH . I 7 HOH A 49 2049 2049 HOH HOH . I 7 HOH A 50 2050 2050 HOH HOH . I 7 HOH A 51 2051 2051 HOH HOH . I 7 HOH A 52 2052 2052 HOH HOH . I 7 HOH A 53 2053 2053 HOH HOH . J 7 HOH B 1 2001 2001 HOH HOH . J 7 HOH B 2 2002 2002 HOH HOH . J 7 HOH B 3 2003 2003 HOH HOH . J 7 HOH B 4 2004 2004 HOH HOH . J 7 HOH B 5 2005 2005 HOH HOH . J 7 HOH B 6 2006 2006 HOH HOH . J 7 HOH B 7 2007 2007 HOH HOH . J 7 HOH B 8 2008 2008 HOH HOH . J 7 HOH B 9 2009 2009 HOH HOH . J 7 HOH B 10 2010 2010 HOH HOH . J 7 HOH B 11 2011 2011 HOH HOH . J 7 HOH B 12 2012 2012 HOH HOH . J 7 HOH B 13 2013 2013 HOH HOH . J 7 HOH B 14 2014 2014 HOH HOH . J 7 HOH B 15 2015 2015 HOH HOH . J 7 HOH B 16 2016 2016 HOH HOH . J 7 HOH B 17 2017 2017 HOH HOH . J 7 HOH B 18 2018 2018 HOH HOH . J 7 HOH B 19 2019 2019 HOH HOH . J 7 HOH B 20 2020 2020 HOH HOH . J 7 HOH B 21 2021 2021 HOH HOH . J 7 HOH B 22 2022 2022 HOH HOH . J 7 HOH B 23 2023 2023 HOH HOH . J 7 HOH B 24 2024 2024 HOH HOH . J 7 HOH B 25 2025 2025 HOH HOH . J 7 HOH B 26 2026 2026 HOH HOH . J 7 HOH B 27 2027 2027 HOH HOH . J 7 HOH B 28 2028 2028 HOH HOH . J 7 HOH B 29 2029 2029 HOH HOH . J 7 HOH B 30 2030 2030 HOH HOH . J 7 HOH B 31 2031 2031 HOH HOH . J 7 HOH B 32 2032 2032 HOH HOH . J 7 HOH B 33 2033 2033 HOH HOH . J 7 HOH B 34 2034 2034 HOH HOH . J 7 HOH B 35 2035 2035 HOH HOH . J 7 HOH B 36 2036 2036 HOH HOH . J 7 HOH B 37 2037 2037 HOH HOH . J 7 HOH B 38 2038 2038 HOH HOH . J 7 HOH B 39 2039 2039 HOH HOH . J 7 HOH B 40 2040 2040 HOH HOH . J 7 HOH B 41 2041 2041 HOH HOH . J 7 HOH B 42 2042 2042 HOH HOH . J 7 HOH B 43 2043 2043 HOH HOH . J 7 HOH B 44 2044 2044 HOH HOH . J 7 HOH B 45 2045 2045 HOH HOH . K 7 HOH E 1 2001 2001 HOH HOH . K 7 HOH E 2 2002 2002 HOH HOH . K 7 HOH E 3 2003 2003 HOH HOH . K 7 HOH E 4 2004 2004 HOH HOH . K 7 HOH E 5 2005 2005 HOH HOH . K 7 HOH E 6 2006 2006 HOH HOH . L 7 HOH F 1 2001 2001 HOH HOH . L 7 HOH F 2 2002 2002 HOH HOH . L 7 HOH F 3 2003 2003 HOH HOH . L 7 HOH F 4 2004 2004 HOH HOH . L 7 HOH F 5 2005 2005 HOH HOH . L 7 HOH F 6 2006 2006 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 HMU . . . E 4 4.348 20.978 42.967 1 80.07 ? N1 HMU 1282 A 1 HETATM 2 C C2 HMU . . . E 4 4.256 22.341 42.522 1 75.12 ? C2 HMU 1282 A 1 HETATM 3 O O2 HMU . . . E 4 5.167 23.274 42.947 1 61.63 ? O2 HMU 1282 A 1 HETATM 4 N N3 HMU . . . E 4 3.143 22.528 41.626 1 68.37 ? N3 HMU 1282 A 1 HETATM 5 C C4 HMU . . . E 4 2.25 21.496 41.214 1 62.69 ? C4 HMU 1282 A 1 HETATM 6 O O3 HMU . . . E 4 1.161 18.809 39.944 1 46.09 ? O3 HMU 1282 A 1 HETATM 7 O O4 HMU . . . E 4 1.311 21.651 40.379 1 53.05 ? O4 HMU 1282 A 1 HETATM 8 C C5 HMU . . . E 4 2.421 20.086 41.701 1 64.02 ? C5 HMU 1282 A 1 HETATM 9 C CM5 HMU . . . E 4 1.523 18.869 41.287 1 59.23 ? CM5 HMU 1282 A 1 HETATM 10 C C6 HMU . . . E 4 3.497 19.92 42.626 1 72.82 ? C6 HMU 1282 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 10 #