data_5FV3 # _model_server_result.job_id PBiBLHvStaUzOMypQHft1g _model_server_result.datetime_utc '2024-11-27 23:23:41' _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 5fv3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":1770}' # _entry.id 5FV3 # _exptl.entry_id 5FV3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 147.086 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-OXALYLGLYCINE _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 5FV3 _cell.length_a 142.35 _cell.length_b 142.35 _cell.length_c 152.33 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FV3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,Q,R,S _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 # _struct_asym.details ? _struct_asym.entity_id 8 _struct_asym.id R _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 A SG CYS 422 A CYS 708 1_555 A SG CYS 439 A CYS 725 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 A NE2 HIS 213 A HIS 499 1_555 E MN MN . A MN 1757 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc2 A OE2 GLU 215 A GLU 501 1_555 E MN MN . A MN 1757 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc3 A NE2 HIS 301 A HIS 587 1_555 E MN MN . A MN 1757 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc4 A SG CYS 406 A CYS 692 1_555 B ZN ZN . A ZN 1754 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc5 A SG CYS 409 A CYS 695 1_555 B ZN ZN . A ZN 1754 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc6 A SG CYS 429 A CYS 715 1_555 B ZN ZN . A ZN 1754 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc7 A ND1 HIS 432 A HIS 718 1_555 B ZN ZN . A ZN 1754 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc8 E MN MN . A MN 1757 1_555 R O1 OGA . A OGA 1770 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc9 E MN MN . A MN 1757 1_555 R O2' OGA . A OGA 1770 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc10 E MN MN . A MN 1757 1_555 S O HOH . A HOH 2054 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? # _chem_comp.formula 'C4 H5 N O5' _chem_comp.formula_weight 147.086 _chem_comp.id OGA _chem_comp.mon_nstd_flag . _chem_comp.name N-OXALYLGLYCINE _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 C1 C2 OGA sing 288 n n C1 O1 OGA doub 289 n n C1 O2 OGA sing 290 n n C2 O2' OGA doub 291 n n C2 N1 OGA sing 292 n n C4 C5 OGA sing 293 n n C4 N1 OGA sing 294 n n C4 H4C1 OGA sing 295 n n C4 H4C2 OGA sing 296 n n C5 O3 OGA sing 297 n n C5 O4 OGA doub 298 n n O2 H2 OGA sing 299 n n O3 H3 OGA sing 300 n n N1 H1 OGA sing 301 n n # _atom_sites.entry_id 5FV3 _atom_sites.fract_transf_matrix[1][1] 0.007025 _atom_sites.fract_transf_matrix[1][2] 0.004056 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008112 _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] 0.006565 _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 B 2 ZN A 1 1754 1754 ZN ZN . C 3 DMS A 1 1755 1755 DMS DMS . D 3 DMS A 1 1756 1756 DMS DMS . E 4 MN A 1 1757 1757 MN MN . F 4 MN A 1 1758 1758 MN MN . G 5 EPE A 1 1759 1759 EPE EPE . H 6 EDO A 1 1760 1760 EDO EDO . I 6 EDO A 1 1761 1761 EDO EDO . J 6 EDO A 1 1762 1762 EDO EDO . K 6 EDO A 1 1763 1763 EDO EDO . L 6 EDO A 1 1764 1764 EDO EDO . M 6 EDO A 1 1765 1765 EDO EDO . N 6 EDO A 1 1766 1766 EDO EDO . O 6 EDO A 1 1767 1767 EDO EDO . P 6 EDO A 1 1768 1768 EDO EDO . Q 7 CL A 1 1769 1769 CL CL . R 8 OGA A 1 1770 1770 OGA OGA . S 9 HOH A 1 2001 2001 HOH HOH . S 9 HOH A 2 2002 2002 HOH HOH . S 9 HOH A 3 2003 2003 HOH HOH . S 9 HOH A 4 2004 2004 HOH HOH . S 9 HOH A 5 2005 2005 HOH HOH . S 9 HOH A 6 2006 2006 HOH HOH . S 9 HOH A 7 2007 2007 HOH HOH . S 9 HOH A 8 2008 2008 HOH HOH . S 9 HOH A 9 2009 2009 HOH HOH . S 9 HOH A 10 2010 2010 HOH HOH . S 9 HOH A 11 2011 2011 HOH HOH . S 9 HOH A 12 2012 2012 HOH HOH . S 9 HOH A 13 2013 2013 HOH HOH . S 9 HOH A 14 2014 2014 HOH HOH . S 9 HOH A 15 2015 2015 HOH HOH . S 9 HOH A 16 2016 2016 HOH HOH . S 9 HOH A 17 2017 2017 HOH HOH . S 9 HOH A 18 2018 2018 HOH HOH . S 9 HOH A 19 2019 2019 HOH HOH . S 9 HOH A 20 2020 2020 HOH HOH . S 9 HOH A 21 2021 2021 HOH HOH . S 9 HOH A 22 2022 2022 HOH HOH . S 9 HOH A 23 2023 2023 HOH HOH . S 9 HOH A 24 2024 2024 HOH HOH . S 9 HOH A 25 2025 2025 HOH HOH . S 9 HOH A 26 2026 2026 HOH HOH . S 9 HOH A 27 2027 2027 HOH HOH . S 9 HOH A 28 2028 2028 HOH HOH . S 9 HOH A 29 2029 2029 HOH HOH . S 9 HOH A 30 2030 2030 HOH HOH . S 9 HOH A 31 2031 2031 HOH HOH . S 9 HOH A 32 2032 2032 HOH HOH . S 9 HOH A 33 2033 2033 HOH HOH . S 9 HOH A 34 2034 2034 HOH HOH . S 9 HOH A 35 2035 2035 HOH HOH . S 9 HOH A 36 2036 2036 HOH HOH . S 9 HOH A 37 2037 2037 HOH HOH . S 9 HOH A 38 2038 2038 HOH HOH . S 9 HOH A 39 2039 2039 HOH HOH . S 9 HOH A 40 2040 2040 HOH HOH . S 9 HOH A 41 2041 2041 HOH HOH . S 9 HOH A 42 2042 2042 HOH HOH . S 9 HOH A 43 2043 2043 HOH HOH . S 9 HOH A 44 2044 2044 HOH HOH . S 9 HOH A 45 2045 2045 HOH HOH . S 9 HOH A 46 2046 2046 HOH HOH . S 9 HOH A 47 2047 2047 HOH HOH . S 9 HOH A 48 2048 2048 HOH HOH . S 9 HOH A 49 2049 2049 HOH HOH . S 9 HOH A 50 2050 2050 HOH HOH . S 9 HOH A 51 2051 2051 HOH HOH . S 9 HOH A 52 2052 2052 HOH HOH . S 9 HOH A 53 2053 2053 HOH HOH . S 9 HOH A 54 2054 2054 HOH HOH . S 9 HOH A 55 2055 2055 HOH HOH . S 9 HOH A 56 2056 2056 HOH HOH . S 9 HOH A 57 2057 2057 HOH HOH . S 9 HOH A 58 2058 2058 HOH HOH . S 9 HOH A 59 2059 2059 HOH HOH . S 9 HOH A 60 2060 2060 HOH HOH . S 9 HOH A 61 2061 2061 HOH HOH . S 9 HOH A 62 2062 2062 HOH HOH . S 9 HOH A 63 2063 2063 HOH HOH . S 9 HOH A 64 2064 2064 HOH HOH . S 9 HOH A 65 2065 2065 HOH HOH . S 9 HOH A 66 2066 2066 HOH HOH . S 9 HOH A 67 2067 2067 HOH HOH . S 9 HOH A 68 2068 2068 HOH HOH . S 9 HOH A 69 2069 2069 HOH HOH . S 9 HOH A 70 2070 2070 HOH HOH . S 9 HOH A 71 2071 2071 HOH HOH . S 9 HOH A 72 2072 2072 HOH HOH . S 9 HOH A 73 2073 2073 HOH HOH . S 9 HOH A 74 2074 2074 HOH HOH . S 9 HOH A 75 2075 2075 HOH HOH . S 9 HOH A 76 2076 2076 HOH HOH . S 9 HOH A 77 2077 2077 HOH HOH . S 9 HOH A 78 2078 2078 HOH HOH . S 9 HOH A 79 2079 2079 HOH HOH . S 9 HOH A 80 2080 2080 HOH HOH . S 9 HOH A 81 2081 2081 HOH HOH . S 9 HOH A 82 2082 2082 HOH HOH . S 9 HOH A 83 2083 2083 HOH HOH . S 9 HOH A 84 2084 2084 HOH HOH . S 9 HOH A 85 2085 2085 HOH HOH . S 9 HOH A 86 2086 2086 HOH HOH . S 9 HOH A 87 2087 2087 HOH HOH . S 9 HOH A 88 2088 2088 HOH HOH . S 9 HOH A 89 2089 2089 HOH HOH . S 9 HOH A 90 2090 2090 HOH HOH . S 9 HOH A 91 2091 2091 HOH HOH . S 9 HOH A 92 2092 2092 HOH HOH . S 9 HOH A 93 2093 2093 HOH HOH . S 9 HOH A 94 2094 2094 HOH HOH . S 9 HOH A 95 2095 2095 HOH HOH . S 9 HOH A 96 2096 2096 HOH HOH . S 9 HOH A 97 2097 2097 HOH HOH . S 9 HOH A 98 2098 2098 HOH HOH . S 9 HOH A 99 2099 2099 HOH HOH . S 9 HOH A 100 2100 2100 HOH HOH . S 9 HOH A 101 2101 2101 HOH HOH . S 9 HOH A 102 2102 2102 HOH HOH . S 9 HOH A 103 2103 2103 HOH HOH . S 9 HOH A 104 2104 2104 HOH HOH . S 9 HOH A 105 2105 2105 HOH HOH . S 9 HOH A 106 2106 2106 HOH HOH . S 9 HOH A 107 2107 2107 HOH HOH . S 9 HOH A 108 2108 2108 HOH HOH . S 9 HOH A 109 2109 2109 HOH HOH . S 9 HOH A 110 2110 2110 HOH HOH . S 9 HOH A 111 2111 2111 HOH HOH . S 9 HOH A 112 2112 2112 HOH HOH . S 9 HOH A 113 2113 2113 HOH HOH . S 9 HOH A 114 2114 2114 HOH HOH . S 9 HOH A 115 2115 2115 HOH HOH . S 9 HOH A 116 2116 2116 HOH HOH . S 9 HOH A 117 2117 2117 HOH HOH . S 9 HOH A 118 2118 2118 HOH HOH . S 9 HOH A 119 2119 2119 HOH HOH . S 9 HOH A 120 2120 2120 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 C C1 OGA . . . R 8 83.395 67.552 14.014 1 50.77 ? C1 OGA 1770 A 1 HETATM 2 C C2 OGA . . . R 8 84.332 66.592 13.286 1 43.18 ? C2 OGA 1770 A 1 HETATM 3 C C4 OGA . . . R 8 86.304 65.191 13.443 1 37.76 ? C4 OGA 1770 A 1 HETATM 4 C C5 OGA . . . R 8 87.417 64.844 14.397 1 45.57 ? C5 OGA 1770 A 1 HETATM 5 O O1 OGA . . . R 8 82.417 68.067 13.478 1 36.41 ? O1 OGA 1770 A 1 HETATM 6 O O2 OGA . . . R 8 83.72 67.782 15.262 1 38.63 ? O2 OGA 1770 A 1 HETATM 7 O O2' OGA . . . R 8 84.152 66.28 12.109 1 39.51 ? O2' OGA 1770 A 1 HETATM 8 O O3 OGA . . . R 8 87.68 65.485 15.396 1 45.95 ? O3 OGA 1770 A 1 HETATM 9 N N1 OGA . . . R 8 85.35 66.117 14.009 1 44.85 ? N1 OGA 1770 A 1 HETATM 10 O O4 OGA . . . R 8 88.069 63.771 14.027 1 48.89 ? O4 OGA 1770 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 10 #