data_5A2K # _model_server_result.job_id HbBDhRLnpdw8ffj0C0ir7g _model_server_result.datetime_utc '2024-11-13 08:02:44' _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 5a2k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":10}' # _entry.id 5A2K # _exptl.entry_id 5A2K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-alpha-D-galactopyranose _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 90 _cell.entry_id 5A2K _cell.length_a 35.418 _cell.length_b 68.796 _cell.length_c 90.414 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5A2K _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 4 _struct_asym.id I _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 22 H CYS 22 1_555 A SG CYS 98 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 156 H CYS 1023 1_555 A SG CYS 224 H CYS 1088 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? covale ? covale1 B OG1 THR 4 P THR 4 1_555 I C1 A2G . P A2G 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id A2G _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-galactopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-galactosamine;2-acetamido-2-deoxy-alpha-D-galactose;2-acetamido-2-deoxy-D-galactose;2-acetamido-2-deoxy-galactose;N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE # 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 O5 C5 A2G sing 1 n n C1 O5 A2G sing 2 n n C1 C2 A2G sing 3 n n C1 H1 A2G sing 4 n n O1 C1 A2G sing 5 n n O1 HO1 A2G sing 6 n n C2 C3 A2G sing 7 n n C2 H2 A2G sing 8 n n N2 C2 A2G sing 9 n n N2 HN2 A2G sing 10 n n C3 C4 A2G sing 11 n n C3 O3 A2G sing 12 n n C3 H3 A2G sing 13 n n O3 HO3 A2G sing 14 n n C4 O4 A2G sing 15 n n C4 H4 A2G sing 16 n n O4 HO4 A2G sing 17 n n C5 C4 A2G sing 18 n n C5 C6 A2G sing 19 n n C5 H5 A2G sing 20 n n C6 O6 A2G sing 21 n n C6 H61 A2G sing 22 n n C7 N2 A2G sing 23 n n O7 C7 A2G doub 24 n n C8 C7 A2G sing 25 n n C8 H81 A2G sing 26 n n C8 H82 A2G sing 27 n n C8 H83 A2G sing 28 n n C6 H62 A2G sing 29 n n O6 HO6 A2G sing 30 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version A2G DGalpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 A2G N-acetyl-a-D-galactopyranosamine 'COMMON NAME' GMML 1 A2G a-D-GalpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 A2G GalNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 5A2K _atom_sites.fract_transf_matrix[1][1] 0.028234 _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] 0.014536 _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] 0.01106 _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 3 EDO H 1 3001 3001 EDO EDO . D 3 EDO H 1 3002 3002 EDO EDO . E 3 EDO H 1 3004 3004 EDO EDO . F 3 EDO H 1 3005 3005 EDO EDO . G 3 EDO H 1 3006 3006 EDO EDO . H 3 EDO H 1 3007 3007 EDO EDO . I 4 A2G P 1 10 10 A2G A2G . J 5 HOH H 1 2001 2001 HOH HOH . J 5 HOH H 2 2002 2002 HOH HOH . J 5 HOH H 3 2003 2003 HOH HOH . J 5 HOH H 4 2004 2004 HOH HOH . J 5 HOH H 5 2005 2005 HOH HOH . J 5 HOH H 6 2006 2006 HOH HOH . J 5 HOH H 7 2007 2007 HOH HOH . J 5 HOH H 8 2008 2008 HOH HOH . J 5 HOH H 9 2009 2009 HOH HOH . J 5 HOH H 10 2010 2010 HOH HOH . J 5 HOH H 11 2011 2011 HOH HOH . J 5 HOH H 12 2012 2012 HOH HOH . J 5 HOH H 13 2013 2013 HOH HOH . J 5 HOH H 14 2014 2014 HOH HOH . J 5 HOH H 15 2015 2015 HOH HOH . J 5 HOH H 16 2016 2016 HOH HOH . J 5 HOH H 17 2017 2017 HOH HOH . J 5 HOH H 18 2018 2018 HOH HOH . J 5 HOH H 19 2019 2019 HOH HOH . J 5 HOH H 20 2020 2020 HOH HOH . J 5 HOH H 21 2021 2021 HOH HOH . J 5 HOH H 22 2022 2022 HOH HOH . J 5 HOH H 23 2023 2023 HOH HOH . J 5 HOH H 24 2024 2024 HOH HOH . J 5 HOH H 25 2025 2025 HOH HOH . J 5 HOH H 26 2026 2026 HOH HOH . J 5 HOH H 27 2027 2027 HOH HOH . J 5 HOH H 28 2028 2028 HOH HOH . J 5 HOH H 29 2029 2029 HOH HOH . J 5 HOH H 30 2030 2030 HOH HOH . J 5 HOH H 31 2031 2031 HOH HOH . J 5 HOH H 32 2032 2032 HOH HOH . J 5 HOH H 33 2033 2033 HOH HOH . J 5 HOH H 34 2034 2034 HOH HOH . J 5 HOH H 35 2035 2035 HOH HOH . J 5 HOH H 36 2036 2036 HOH HOH . J 5 HOH H 37 2037 2037 HOH HOH . J 5 HOH H 38 2038 2038 HOH HOH . J 5 HOH H 39 2039 2039 HOH HOH . J 5 HOH H 40 2040 2040 HOH HOH . J 5 HOH H 41 2041 2041 HOH HOH . J 5 HOH H 42 2042 2042 HOH HOH . J 5 HOH H 43 2043 2043 HOH HOH . J 5 HOH H 44 2044 2044 HOH HOH . J 5 HOH H 45 2045 2045 HOH HOH . J 5 HOH H 46 2046 2046 HOH HOH . J 5 HOH H 47 2047 2047 HOH HOH . J 5 HOH H 48 2048 2048 HOH HOH . J 5 HOH H 49 2049 2049 HOH HOH . J 5 HOH H 50 2050 2050 HOH HOH . J 5 HOH H 51 2051 2051 HOH HOH . J 5 HOH H 52 2052 2052 HOH HOH . J 5 HOH H 53 2053 2053 HOH HOH . J 5 HOH H 54 2054 2054 HOH HOH . J 5 HOH H 55 2055 2055 HOH HOH . J 5 HOH H 56 2056 2056 HOH HOH . J 5 HOH H 57 2057 2057 HOH HOH . J 5 HOH H 58 2058 2058 HOH HOH . J 5 HOH H 59 2059 2059 HOH HOH . J 5 HOH H 60 2060 2060 HOH HOH . J 5 HOH H 61 2061 2061 HOH HOH . J 5 HOH H 62 2062 2062 HOH HOH . J 5 HOH H 63 2063 2063 HOH HOH . J 5 HOH H 64 2064 2064 HOH HOH . J 5 HOH H 65 2065 2065 HOH HOH . J 5 HOH H 66 2066 2066 HOH HOH . J 5 HOH H 67 2067 2067 HOH HOH . J 5 HOH H 68 2068 2068 HOH HOH . J 5 HOH H 69 2069 2069 HOH HOH . J 5 HOH H 70 2070 2070 HOH HOH . J 5 HOH H 71 2071 2071 HOH HOH . J 5 HOH H 72 2072 2072 HOH HOH . J 5 HOH H 73 2073 2073 HOH HOH . J 5 HOH H 74 2074 2074 HOH HOH . J 5 HOH H 75 2075 2075 HOH HOH . J 5 HOH H 76 2076 2076 HOH HOH . J 5 HOH H 77 2077 2077 HOH HOH . J 5 HOH H 78 2078 2078 HOH HOH . J 5 HOH H 79 2079 2079 HOH HOH . J 5 HOH H 80 2080 2080 HOH HOH . J 5 HOH H 81 2081 2081 HOH HOH . J 5 HOH H 82 2082 2082 HOH HOH . J 5 HOH H 83 2083 2083 HOH HOH . J 5 HOH H 84 2084 2084 HOH HOH . J 5 HOH H 85 2085 2085 HOH HOH . J 5 HOH H 86 2086 2086 HOH HOH . J 5 HOH H 87 2087 2087 HOH HOH . J 5 HOH H 88 2088 2088 HOH HOH . J 5 HOH H 89 2089 2089 HOH HOH . J 5 HOH H 90 2090 2090 HOH HOH . J 5 HOH H 91 2091 2091 HOH HOH . J 5 HOH H 92 2092 2092 HOH HOH . J 5 HOH H 93 2093 2093 HOH HOH . J 5 HOH H 94 2094 2094 HOH HOH . J 5 HOH H 95 2095 2095 HOH HOH . J 5 HOH H 96 2096 2096 HOH HOH . J 5 HOH H 97 2097 2097 HOH HOH . J 5 HOH H 98 2098 2098 HOH HOH . J 5 HOH H 99 2099 2099 HOH HOH . J 5 HOH H 100 2100 2100 HOH HOH . J 5 HOH H 101 2101 2101 HOH HOH . J 5 HOH H 102 2102 2102 HOH HOH . J 5 HOH H 103 2103 2103 HOH HOH . J 5 HOH H 104 2104 2104 HOH HOH . J 5 HOH H 105 2105 2105 HOH HOH . J 5 HOH H 106 2106 2106 HOH HOH . J 5 HOH H 107 2107 2107 HOH HOH . J 5 HOH H 108 2108 2108 HOH HOH . J 5 HOH H 109 2109 2109 HOH HOH . J 5 HOH H 110 2110 2110 HOH HOH . J 5 HOH H 111 2111 2111 HOH HOH . J 5 HOH H 112 2112 2112 HOH HOH . J 5 HOH H 113 2113 2113 HOH HOH . J 5 HOH H 114 2114 2114 HOH HOH . J 5 HOH H 115 2115 2115 HOH HOH . J 5 HOH H 116 2116 2116 HOH HOH . J 5 HOH H 117 2117 2117 HOH HOH . J 5 HOH H 118 2118 2118 HOH HOH . J 5 HOH H 119 2119 2119 HOH HOH . J 5 HOH H 120 2120 2120 HOH HOH . J 5 HOH H 121 2121 2121 HOH HOH . J 5 HOH H 122 2122 2122 HOH HOH . J 5 HOH H 123 2123 2123 HOH HOH . J 5 HOH H 124 2124 2124 HOH HOH . J 5 HOH H 125 2125 2125 HOH HOH . J 5 HOH H 126 2126 2126 HOH HOH . J 5 HOH H 127 2127 2127 HOH HOH . J 5 HOH H 128 2128 2128 HOH HOH . J 5 HOH H 129 2129 2129 HOH HOH . J 5 HOH H 130 2130 2130 HOH HOH . J 5 HOH H 131 2131 2131 HOH HOH . J 5 HOH H 132 2132 2132 HOH HOH . J 5 HOH H 133 2133 2133 HOH HOH . J 5 HOH H 134 2134 2134 HOH HOH . J 5 HOH H 135 2135 2135 HOH HOH . J 5 HOH H 136 2136 2136 HOH HOH . J 5 HOH H 137 2137 2137 HOH HOH . J 5 HOH H 138 2138 2138 HOH HOH . J 5 HOH H 139 2139 2139 HOH HOH . J 5 HOH H 140 2140 2140 HOH HOH . J 5 HOH H 141 2141 2141 HOH HOH . J 5 HOH H 142 2142 2142 HOH HOH . J 5 HOH H 143 2143 2143 HOH HOH . J 5 HOH H 144 2144 2144 HOH HOH . J 5 HOH H 145 2145 2145 HOH HOH . J 5 HOH H 146 2146 2146 HOH HOH . J 5 HOH H 147 2147 2147 HOH HOH . J 5 HOH H 148 2148 2148 HOH HOH . J 5 HOH H 149 2149 2149 HOH HOH . J 5 HOH H 150 2150 2150 HOH HOH . J 5 HOH H 151 2151 2151 HOH HOH . J 5 HOH H 152 2152 2152 HOH HOH . J 5 HOH H 153 2153 2153 HOH HOH . J 5 HOH H 154 2154 2154 HOH HOH . J 5 HOH H 155 2155 2155 HOH HOH . J 5 HOH H 156 2156 2156 HOH HOH . J 5 HOH H 157 2157 2157 HOH HOH . J 5 HOH H 158 2158 2158 HOH HOH . J 5 HOH H 159 2159 2159 HOH HOH . J 5 HOH H 160 2160 2160 HOH HOH . J 5 HOH H 161 2161 2161 HOH HOH . J 5 HOH H 162 2162 2162 HOH HOH . J 5 HOH H 163 2163 2163 HOH HOH . J 5 HOH H 164 2164 2164 HOH HOH . J 5 HOH H 165 2165 2165 HOH HOH . J 5 HOH H 166 2166 2166 HOH HOH . J 5 HOH H 167 2167 2167 HOH HOH . J 5 HOH H 168 2168 2168 HOH HOH . J 5 HOH H 169 2169 2169 HOH HOH . J 5 HOH H 170 2170 2170 HOH HOH . J 5 HOH H 171 2171 2171 HOH HOH . J 5 HOH H 172 2172 2172 HOH HOH . J 5 HOH H 173 2173 2173 HOH HOH . J 5 HOH H 174 2174 2174 HOH HOH . J 5 HOH H 175 2175 2175 HOH HOH . J 5 HOH H 176 2176 2176 HOH HOH . J 5 HOH H 177 2177 2177 HOH HOH . J 5 HOH H 178 2178 2178 HOH HOH . J 5 HOH H 179 2179 2179 HOH HOH . J 5 HOH H 180 2180 2180 HOH HOH . J 5 HOH H 181 2181 2181 HOH HOH . J 5 HOH H 182 2182 2182 HOH HOH . K 5 HOH P 1 2001 2001 HOH HOH . K 5 HOH P 2 2002 2002 HOH HOH . K 5 HOH P 3 2003 2003 HOH HOH . K 5 HOH P 4 2004 2004 HOH HOH . K 5 HOH P 5 2005 2005 HOH HOH . K 5 HOH P 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 O O5 A2G . . . I 4 20.38 12.925 0.494 1 38.25 ? O5 A2G 10 P 1 HETATM 2 C C1 A2G . . . I 4 20.181 13.122 1.906 1 37.66 ? C1 A2G 10 P 1 HETATM 3 C C2 A2G . . . I 4 19.967 14.625 2.237 1 38.06 ? C2 A2G 10 P 1 HETATM 4 N N2 A2G . . . I 4 19.488 14.874 3.603 1 37.86 ? N2 A2G 10 P 1 HETATM 5 C C3 A2G . . . I 4 18.953 15.289 1.31 1 39.17 ? C3 A2G 10 P 1 HETATM 6 O O3 A2G . . . I 4 18.995 16.71 1.461 1 38.42 ? O3 A2G 10 P 1 HETATM 7 C C4 A2G . . . I 4 19.202 14.914 -0.143 1 42.23 ? C4 A2G 10 P 1 HETATM 8 O O4 A2G . . . I 4 20.453 15.457 -0.562 1 40.54 ? O4 A2G 10 P 1 HETATM 9 C C5 A2G . . . I 4 19.199 13.385 -0.202 1 42.98 ? C5 A2G 10 P 1 HETATM 10 C C6 A2G . . . I 4 18.983 12.832 -1.62 1 48 ? C6 A2G 10 P 1 HETATM 11 O O6 A2G . . . I 4 17.548 12.706 -1.835 1 49.55 ? O6 A2G 10 P 1 HETATM 12 C C7 A2G . . . I 4 20.25 14.753 4.693 1 39.09 ? C7 A2G 10 P 1 HETATM 13 O O7 A2G . . . I 4 21.418 14.408 4.656 1 38.09 ? O7 A2G 10 P 1 HETATM 14 C C8 A2G . . . I 4 19.569 15.054 6.005 1 38.06 ? C8 A2G 10 P 1 # _model_server_stats.io_time_ms 71 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #