data_5ABE # _model_server_result.job_id hWx_Yh8moL9uEEGazoARog _model_server_result.datetime_utc '2024-11-30 20:43:44' _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 5abe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1716}' # _entry.id 5ABE # _exptl.entry_id 5ABE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 274.357 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[(2S,3S,4R,5R)-5-(hydroxymethyl)-3,4-bis(oxidanyl)-1-pentyl-pyrrolidin-2-yl]-N-methyl-ethanamide _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 90 _cell.angle_gamma 90 _cell.entry_id 5ABE _cell.length_a 51.572 _cell.length_b 159.605 _cell.length_c 223.121 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ABE _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 2 21 21' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,F 1 1 B,D,E,G 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 C N N ? 2 E N N # _chem_comp.formula 'C13 H26 N2 O4' _chem_comp.formula_weight 274.357 _chem_comp.id XQO _chem_comp.mon_nstd_flag . _chem_comp.name 2-[(2S,3S,4R,5R)-5-(hydroxymethyl)-3,4-bis(oxidanyl)-1-pentyl-pyrrolidin-2-yl]-N-methyl-ethanamide _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 O13 C12 XQO doub 376 n n C12 N14 XQO sing 377 n n C12 C11 XQO sing 378 n n N14 C15 XQO sing 379 n n C11 C3 XQO sing 380 n n C3 C4 XQO sing 381 n n C3 N2 XQO sing 382 n n C4 O21 XQO sing 383 n n C4 C5 XQO sing 384 n n C5 O20 XQO sing 385 n n C5 C6 XQO sing 386 n n C6 C18 XQO sing 387 n n C6 N2 XQO sing 388 n n C18 O19 XQO sing 389 n n N2 C1 XQO sing 390 n n C1 C7 XQO sing 391 n n C7 C8 XQO sing 392 n n C8 C9 XQO sing 393 n n C9 C10 XQO sing 394 n n N14 H14 XQO sing 395 n n C11 H111 XQO sing 396 n n C11 H112 XQO sing 397 n n C15 H151 XQO sing 398 n n C15 H152 XQO sing 399 n n C15 H153 XQO sing 400 n n C3 H3 XQO sing 401 n n C4 H4 XQO sing 402 n n O21 H21 XQO sing 403 n n C5 H5 XQO sing 404 n n O20 H20 XQO sing 405 n n C6 H6 XQO sing 406 n n C18 H181 XQO sing 407 n n C18 H182 XQO sing 408 n n O19 H19 XQO sing 409 n n C1 H11C XQO sing 410 n n C1 H12C XQO sing 411 n n C7 H71C XQO sing 412 n n C7 H72C XQO sing 413 n n C8 H81C XQO sing 414 n n C8 H82C XQO sing 415 n n C9 H91C XQO sing 416 n n C9 H92C XQO sing 417 n n C10 H101 XQO sing 418 n n C10 H102 XQO sing 419 n n C10 H103 XQO sing 420 n n # _atom_sites.entry_id 5ABE _atom_sites.fract_transf_matrix[1][1] 0.01939 _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] 0.006265 _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] 0.004482 _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 C 2 XQO A 1 1716 1716 XQO XQO . D 3 CA B 1 1716 1716 CA CA . E 2 XQO B 1 1717 1717 XQO XQO . F 4 HOH A 1 2001 2001 HOH HOH . F 4 HOH A 2 2002 2002 HOH HOH . F 4 HOH A 3 2003 2003 HOH HOH . F 4 HOH A 4 2004 2004 HOH HOH . F 4 HOH A 5 2005 2005 HOH HOH . F 4 HOH A 6 2006 2006 HOH HOH . F 4 HOH A 7 2007 2007 HOH HOH . F 4 HOH A 8 2008 2008 HOH HOH . F 4 HOH A 9 2009 2009 HOH HOH . F 4 HOH A 10 2010 2010 HOH HOH . F 4 HOH A 11 2011 2011 HOH HOH . F 4 HOH A 12 2012 2012 HOH HOH . F 4 HOH A 13 2013 2013 HOH HOH . F 4 HOH A 14 2014 2014 HOH HOH . F 4 HOH A 15 2015 2015 HOH HOH . F 4 HOH A 16 2016 2016 HOH HOH . F 4 HOH A 17 2017 2017 HOH HOH . F 4 HOH A 18 2018 2018 HOH HOH . F 4 HOH A 19 2019 2019 HOH HOH . F 4 HOH A 20 2020 2020 HOH HOH . F 4 HOH A 21 2021 2021 HOH HOH . F 4 HOH A 22 2022 2022 HOH HOH . F 4 HOH A 23 2023 2023 HOH HOH . F 4 HOH A 24 2024 2024 HOH HOH . F 4 HOH A 25 2025 2025 HOH HOH . F 4 HOH A 26 2026 2026 HOH HOH . F 4 HOH A 27 2027 2027 HOH HOH . F 4 HOH A 28 2028 2028 HOH HOH . F 4 HOH A 29 2029 2029 HOH HOH . F 4 HOH A 30 2030 2030 HOH HOH . F 4 HOH A 31 2031 2031 HOH HOH . F 4 HOH A 32 2032 2032 HOH HOH . F 4 HOH A 33 2033 2033 HOH HOH . F 4 HOH A 34 2034 2034 HOH HOH . F 4 HOH A 35 2035 2035 HOH HOH . F 4 HOH A 36 2036 2036 HOH HOH . F 4 HOH A 37 2037 2037 HOH HOH . F 4 HOH A 38 2038 2038 HOH HOH . F 4 HOH A 39 2039 2039 HOH HOH . F 4 HOH A 40 2040 2040 HOH HOH . F 4 HOH A 41 2041 2041 HOH HOH . F 4 HOH A 42 2042 2042 HOH HOH . F 4 HOH A 43 2043 2043 HOH HOH . F 4 HOH A 44 2044 2044 HOH HOH . F 4 HOH A 45 2045 2045 HOH HOH . F 4 HOH A 46 2046 2046 HOH HOH . F 4 HOH A 47 2047 2047 HOH HOH . F 4 HOH A 48 2048 2048 HOH HOH . F 4 HOH A 49 2049 2049 HOH HOH . F 4 HOH A 50 2050 2050 HOH HOH . F 4 HOH A 51 2051 2051 HOH HOH . F 4 HOH A 52 2052 2052 HOH HOH . F 4 HOH A 53 2053 2053 HOH HOH . F 4 HOH A 54 2054 2054 HOH HOH . F 4 HOH A 55 2055 2055 HOH HOH . F 4 HOH A 56 2056 2056 HOH HOH . F 4 HOH A 57 2057 2057 HOH HOH . F 4 HOH A 58 2058 2058 HOH HOH . F 4 HOH A 59 2059 2059 HOH HOH . F 4 HOH A 60 2060 2060 HOH HOH . F 4 HOH A 61 2061 2061 HOH HOH . F 4 HOH A 62 2062 2062 HOH HOH . F 4 HOH A 63 2063 2063 HOH HOH . F 4 HOH A 64 2064 2064 HOH HOH . F 4 HOH A 65 2065 2065 HOH HOH . F 4 HOH A 66 2066 2066 HOH HOH . F 4 HOH A 67 2067 2067 HOH HOH . F 4 HOH A 68 2068 2068 HOH HOH . F 4 HOH A 69 2069 2069 HOH HOH . F 4 HOH A 70 2070 2070 HOH HOH . F 4 HOH A 71 2071 2071 HOH HOH . F 4 HOH A 72 2072 2072 HOH HOH . F 4 HOH A 73 2073 2073 HOH HOH . F 4 HOH A 74 2074 2074 HOH HOH . F 4 HOH A 75 2075 2075 HOH HOH . F 4 HOH A 76 2076 2076 HOH HOH . F 4 HOH A 77 2077 2077 HOH HOH . F 4 HOH A 78 2078 2078 HOH HOH . F 4 HOH A 79 2079 2079 HOH HOH . F 4 HOH A 80 2080 2080 HOH HOH . F 4 HOH A 81 2081 2081 HOH HOH . F 4 HOH A 82 2082 2082 HOH HOH . F 4 HOH A 83 2083 2083 HOH HOH . F 4 HOH A 84 2084 2084 HOH HOH . F 4 HOH A 85 2085 2085 HOH HOH . F 4 HOH A 86 2086 2086 HOH HOH . F 4 HOH A 87 2087 2087 HOH HOH . F 4 HOH A 88 2088 2088 HOH HOH . F 4 HOH A 89 2089 2089 HOH HOH . F 4 HOH A 90 2090 2090 HOH HOH . F 4 HOH A 91 2091 2091 HOH HOH . F 4 HOH A 92 2092 2092 HOH HOH . F 4 HOH A 93 2093 2093 HOH HOH . F 4 HOH A 94 2094 2094 HOH HOH . F 4 HOH A 95 2095 2095 HOH HOH . F 4 HOH A 96 2096 2096 HOH HOH . F 4 HOH A 97 2097 2097 HOH HOH . F 4 HOH A 98 2098 2098 HOH HOH . F 4 HOH A 99 2099 2099 HOH HOH . F 4 HOH A 100 2100 2100 HOH HOH . F 4 HOH A 101 2101 2101 HOH HOH . F 4 HOH A 102 2102 2102 HOH HOH . F 4 HOH A 103 2103 2103 HOH HOH . F 4 HOH A 104 2104 2104 HOH HOH . F 4 HOH A 105 2105 2105 HOH HOH . F 4 HOH A 106 2106 2106 HOH HOH . F 4 HOH A 107 2107 2107 HOH HOH . F 4 HOH A 108 2108 2108 HOH HOH . F 4 HOH A 109 2109 2109 HOH HOH . F 4 HOH A 110 2110 2110 HOH HOH . F 4 HOH A 111 2111 2111 HOH HOH . F 4 HOH A 112 2112 2112 HOH HOH . F 4 HOH A 113 2113 2113 HOH HOH . F 4 HOH A 114 2114 2114 HOH HOH . F 4 HOH A 115 2115 2115 HOH HOH . F 4 HOH A 116 2116 2116 HOH HOH . F 4 HOH A 117 2117 2117 HOH HOH . F 4 HOH A 118 2118 2118 HOH HOH . F 4 HOH A 119 2119 2119 HOH HOH . F 4 HOH A 120 2120 2120 HOH HOH . F 4 HOH A 121 2121 2121 HOH HOH . F 4 HOH A 122 2122 2122 HOH HOH . F 4 HOH A 123 2123 2123 HOH HOH . F 4 HOH A 124 2124 2124 HOH HOH . F 4 HOH A 125 2125 2125 HOH HOH . G 4 HOH B 1 2001 2001 HOH HOH . G 4 HOH B 2 2002 2002 HOH HOH . G 4 HOH B 3 2003 2003 HOH HOH . G 4 HOH B 4 2004 2004 HOH HOH . G 4 HOH B 5 2005 2005 HOH HOH . G 4 HOH B 6 2006 2006 HOH HOH . G 4 HOH B 7 2007 2007 HOH HOH . G 4 HOH B 8 2008 2008 HOH HOH . G 4 HOH B 9 2009 2009 HOH HOH . G 4 HOH B 10 2010 2010 HOH HOH . G 4 HOH B 11 2011 2011 HOH HOH . G 4 HOH B 12 2012 2012 HOH HOH . G 4 HOH B 13 2013 2013 HOH HOH . G 4 HOH B 14 2014 2014 HOH HOH . G 4 HOH B 15 2015 2015 HOH HOH . G 4 HOH B 16 2016 2016 HOH HOH . G 4 HOH B 17 2017 2017 HOH HOH . G 4 HOH B 18 2018 2018 HOH HOH . G 4 HOH B 19 2019 2019 HOH HOH . G 4 HOH B 20 2020 2020 HOH HOH . G 4 HOH B 21 2021 2021 HOH HOH . G 4 HOH B 22 2022 2022 HOH HOH . G 4 HOH B 23 2023 2023 HOH HOH . G 4 HOH B 24 2024 2024 HOH HOH . G 4 HOH B 25 2025 2025 HOH HOH . G 4 HOH B 26 2026 2026 HOH HOH . G 4 HOH B 27 2027 2027 HOH HOH . G 4 HOH B 28 2028 2028 HOH HOH . G 4 HOH B 29 2029 2029 HOH HOH . G 4 HOH B 30 2030 2030 HOH HOH . G 4 HOH B 31 2031 2031 HOH HOH . G 4 HOH B 32 2032 2032 HOH HOH . G 4 HOH B 33 2033 2033 HOH HOH . G 4 HOH B 34 2034 2034 HOH HOH . G 4 HOH B 35 2035 2035 HOH HOH . G 4 HOH B 36 2036 2036 HOH HOH . G 4 HOH B 37 2037 2037 HOH HOH . G 4 HOH B 38 2038 2038 HOH HOH . G 4 HOH B 39 2039 2039 HOH HOH . G 4 HOH B 40 2040 2040 HOH HOH . G 4 HOH B 41 2041 2041 HOH HOH . G 4 HOH B 42 2042 2042 HOH HOH . G 4 HOH B 43 2043 2043 HOH HOH . G 4 HOH B 44 2044 2044 HOH HOH . G 4 HOH B 45 2045 2045 HOH HOH . G 4 HOH B 46 2046 2046 HOH HOH . G 4 HOH B 47 2047 2047 HOH HOH . G 4 HOH B 48 2048 2048 HOH HOH . G 4 HOH B 49 2049 2049 HOH HOH . G 4 HOH B 50 2050 2050 HOH HOH . G 4 HOH B 51 2051 2051 HOH HOH . G 4 HOH B 52 2052 2052 HOH HOH . G 4 HOH B 53 2053 2053 HOH HOH . G 4 HOH B 54 2054 2054 HOH HOH . G 4 HOH B 55 2055 2055 HOH HOH . G 4 HOH B 56 2056 2056 HOH HOH . G 4 HOH B 57 2057 2057 HOH HOH . G 4 HOH B 58 2058 2058 HOH HOH . G 4 HOH B 59 2059 2059 HOH HOH . G 4 HOH B 60 2060 2060 HOH HOH . G 4 HOH B 61 2061 2061 HOH HOH . G 4 HOH B 62 2062 2062 HOH HOH . G 4 HOH B 63 2063 2063 HOH HOH . G 4 HOH B 64 2064 2064 HOH HOH . G 4 HOH B 65 2065 2065 HOH HOH . G 4 HOH B 66 2066 2066 HOH HOH . G 4 HOH B 67 2067 2067 HOH HOH . G 4 HOH B 68 2068 2068 HOH HOH . G 4 HOH B 69 2069 2069 HOH HOH . G 4 HOH B 70 2070 2070 HOH HOH . G 4 HOH B 71 2071 2071 HOH HOH . G 4 HOH B 72 2072 2072 HOH HOH . G 4 HOH B 73 2073 2073 HOH HOH . G 4 HOH B 74 2074 2074 HOH HOH . G 4 HOH B 75 2075 2075 HOH HOH . G 4 HOH B 76 2076 2076 HOH HOH . G 4 HOH B 77 2077 2077 HOH HOH . G 4 HOH B 78 2078 2078 HOH HOH . G 4 HOH B 79 2079 2079 HOH HOH . G 4 HOH B 80 2080 2080 HOH HOH . G 4 HOH B 81 2081 2081 HOH HOH . G 4 HOH B 82 2082 2082 HOH HOH . G 4 HOH B 83 2083 2083 HOH HOH . G 4 HOH B 84 2084 2084 HOH HOH . G 4 HOH B 85 2085 2085 HOH HOH . G 4 HOH B 86 2086 2086 HOH HOH . G 4 HOH B 87 2087 2087 HOH HOH . G 4 HOH B 88 2088 2088 HOH HOH . G 4 HOH B 89 2089 2089 HOH HOH . G 4 HOH B 90 2090 2090 HOH HOH . G 4 HOH B 91 2091 2091 HOH HOH . G 4 HOH B 92 2092 2092 HOH HOH . G 4 HOH B 93 2093 2093 HOH HOH . G 4 HOH B 94 2094 2094 HOH HOH . G 4 HOH B 95 2095 2095 HOH HOH . G 4 HOH B 96 2096 2096 HOH HOH . G 4 HOH B 97 2097 2097 HOH HOH . G 4 HOH B 98 2098 2098 HOH HOH . G 4 HOH B 99 2099 2099 HOH HOH . G 4 HOH B 100 2100 2100 HOH HOH . G 4 HOH B 101 2101 2101 HOH HOH . G 4 HOH B 102 2102 2102 HOH HOH . G 4 HOH B 103 2103 2103 HOH HOH . G 4 HOH B 104 2104 2104 HOH HOH . G 4 HOH B 105 2105 2105 HOH HOH . G 4 HOH B 106 2106 2106 HOH HOH . G 4 HOH B 107 2107 2107 HOH HOH . G 4 HOH B 108 2108 2108 HOH HOH . G 4 HOH B 109 2109 2109 HOH HOH . G 4 HOH B 110 2110 2110 HOH HOH . G 4 HOH B 111 2111 2111 HOH HOH . G 4 HOH B 112 2112 2112 HOH HOH . G 4 HOH B 113 2113 2113 HOH HOH . G 4 HOH B 114 2114 2114 HOH HOH . G 4 HOH B 115 2115 2115 HOH HOH . G 4 HOH B 116 2116 2116 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 O O13 XQO . . . C 2 27.975 51.97 245.294 1 42.39 ? O13 XQO 1716 A 1 HETATM 2 C C12 XQO . . . C 2 29.183 51.776 245.163 1 57.12 ? C12 XQO 1716 A 1 HETATM 3 N N14 XQO . . . C 2 29.838 51.728 244.004 1 57.12 ? N14 XQO 1716 A 1 HETATM 4 C C15 XQO . . . C 2 29.159 51.898 242.732 1 60.32 ? C15 XQO 1716 A 1 HETATM 5 C C11 XQO . . . C 2 29.997 51.499 246.402 1 59.31 ? C11 XQO 1716 A 1 HETATM 6 C C3 XQO . . . C 2 29.081 50.505 247.105 1 61.48 ? C3 XQO 1716 A 1 HETATM 7 C C4 XQO . . . C 2 29.788 49.672 248.121 1 62.35 ? C4 XQO 1716 A 1 HETATM 8 O O21 XQO . . . C 2 30.707 48.741 247.522 1 61.23 ? O21 XQO 1716 A 1 HETATM 9 C C5 XQO . . . C 2 28.586 49.079 248.855 1 58.66 ? C5 XQO 1716 A 1 HETATM 10 O O20 XQO . . . C 2 28.342 47.745 248.451 1 51.85 ? O20 XQO 1716 A 1 HETATM 11 C C6 XQO . . . C 2 27.349 49.882 248.496 1 56.54 ? C6 XQO 1716 A 1 HETATM 12 C C18 XQO . . . C 2 26.43 50.117 249.683 1 57.51 ? C18 XQO 1716 A 1 HETATM 13 O O19 XQO . . . C 2 25.713 48.896 249.795 1 69.75 ? O19 XQO 1716 A 1 HETATM 14 N N2 XQO . . . C 2 27.889 51.079 247.82 1 61.05 ? N2 XQO 1716 A 1 HETATM 15 C C1 XQO . . . C 2 28.04 52.324 248.641 1 59.45 ? C1 XQO 1716 A 1 HETATM 16 C C7 XQO . . . C 2 28.924 52.414 249.884 1 58.48 ? C7 XQO 1716 A 1 HETATM 17 C C8 XQO . . . C 2 28.582 53.725 250.621 1 59.97 ? C8 XQO 1716 A 1 HETATM 18 C C9 XQO . . . C 2 29.793 54.361 251.304 1 63.82 ? C9 XQO 1716 A 1 HETATM 19 C C10 XQO . . . C 2 29.414 55.629 252.048 1 67.02 ? C10 XQO 1716 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 19 #