data_3NKL # _model_server_result.job_id OojWSiaMYzHiG0DTk-3EXw _model_server_result.datetime_utc '2024-11-22 17:42:29' _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 3nkl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":139}' # _entry.id 3NKL # _exptl.entry_id 3NKL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 91.54 _cell.angle_gamma 90 _cell.entry_id 3NKL _cell.length_a 108.262 _cell.length_b 45.379 _cell.length_c 69.813 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NKL _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 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,L,M _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 ? 3 D N N ? 3 H 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 disulf ? disulf1 A SG CYS 65 A CYS 62 1_555 B SG CYS 65 B CYS 62 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? covale ? covale1 A C ASN 21 A ASN 18 1_555 A N MSE 22 A MSE 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale2 A C MSE 22 A MSE 19 1_555 A N LEU 23 A LEU 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C THR 45 A THR 42 1_555 A N MSE 46 A MSE 43 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale4 A C MSE 46 A MSE 43 1_555 A N GLN 47 A GLN 44 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale5 B C ASN 21 B ASN 18 1_555 B N MSE 22 B MSE 19 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.328 ? covale ? covale6 B C ASN 21 B ASN 18 1_555 B N MSE 22 B MSE 19 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.327 ? covale ? covale7 B C MSE 22 B MSE 19 1_555 B N LEU 23 B LEU 20 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 B C MSE 22 B MSE 19 1_555 B N LEU 23 B LEU 20 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 B C THR 45 B THR 42 1_555 B N MSE 46 B MSE 43 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.323 ? covale ? covale10 B C THR 45 B THR 42 1_555 B N MSE 46 B MSE 43 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.334 ? covale ? covale11 B C MSE 46 B MSE 43 1_555 B N GLN 47 B GLN 44 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale12 B C MSE 46 B MSE 43 1_555 B N GLN 47 B GLN 44 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.338 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # _atom_sites.entry_id 3NKL _atom_sites.fract_transf_matrix[1][1] 0.009237 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000248 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022037 _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] 0.014329 _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 SO4 A 1 141 141 SO4 SO4 . D 3 GOL A 1 142 142 GOL GOL . E 2 SO4 A 1 143 143 SO4 SO4 . F 4 ACY A 1 144 144 ACY ACY . G 2 SO4 A 1 145 145 SO4 SO4 . H 3 GOL A 1 139 142 GOL GOL . I 5 CL B 1 141 141 CL CL . J 2 SO4 B 1 143 143 SO4 SO4 . K 2 SO4 B 1 144 144 SO4 SO4 . L 6 HOH A 1 140 140 HOH HOH . L 6 HOH A 2 146 3 HOH HOH . L 6 HOH A 3 147 4 HOH HOH . L 6 HOH A 4 148 148 HOH HOH . L 6 HOH A 5 149 149 HOH HOH . L 6 HOH A 6 150 150 HOH HOH . L 6 HOH A 7 151 7 HOH HOH . L 6 HOH A 8 152 152 HOH HOH . L 6 HOH A 9 153 153 HOH HOH . L 6 HOH A 10 154 11 HOH HOH . L 6 HOH A 11 155 155 HOH HOH . L 6 HOH A 12 156 13 HOH HOH . L 6 HOH A 13 157 157 HOH HOH . L 6 HOH A 14 158 158 HOH HOH . L 6 HOH A 15 159 159 HOH HOH . L 6 HOH A 16 160 14 HOH HOH . L 6 HOH A 17 161 15 HOH HOH . L 6 HOH A 18 162 17 HOH HOH . L 6 HOH A 19 163 18 HOH HOH . L 6 HOH A 20 164 164 HOH HOH . L 6 HOH A 21 165 22 HOH HOH . L 6 HOH A 22 166 23 HOH HOH . L 6 HOH A 23 167 27 HOH HOH . L 6 HOH A 24 168 168 HOH HOH . L 6 HOH A 25 169 169 HOH HOH . L 6 HOH A 26 170 28 HOH HOH . L 6 HOH A 27 171 29 HOH HOH . L 6 HOH A 28 172 32 HOH HOH . L 6 HOH A 29 173 173 HOH HOH . L 6 HOH A 30 174 36 HOH HOH . L 6 HOH A 31 175 37 HOH HOH . L 6 HOH A 32 176 176 HOH HOH . L 6 HOH A 33 177 177 HOH HOH . L 6 HOH A 34 178 38 HOH HOH . L 6 HOH A 35 179 179 HOH HOH . L 6 HOH A 36 180 180 HOH HOH . L 6 HOH A 37 181 181 HOH HOH . L 6 HOH A 38 182 182 HOH HOH . L 6 HOH A 39 183 40 HOH HOH . L 6 HOH A 40 184 41 HOH HOH . L 6 HOH A 41 185 44 HOH HOH . L 6 HOH A 42 186 186 HOH HOH . L 6 HOH A 43 187 48 HOH HOH . L 6 HOH A 44 188 188 HOH HOH . L 6 HOH A 45 189 189 HOH HOH . L 6 HOH A 46 190 49 HOH HOH . L 6 HOH A 47 191 52 HOH HOH . L 6 HOH A 48 192 53 HOH HOH . L 6 HOH A 49 193 193 HOH HOH . L 6 HOH A 50 194 55 HOH HOH . L 6 HOH A 51 195 195 HOH HOH . L 6 HOH A 52 196 196 HOH HOH . L 6 HOH A 53 197 56 HOH HOH . L 6 HOH A 54 198 57 HOH HOH . L 6 HOH A 55 199 199 HOH HOH . L 6 HOH A 56 200 200 HOH HOH . L 6 HOH A 57 201 58 HOH HOH . L 6 HOH A 58 202 61 HOH HOH . L 6 HOH A 59 203 203 HOH HOH . L 6 HOH A 60 204 204 HOH HOH . L 6 HOH A 61 205 205 HOH HOH . L 6 HOH A 62 206 63 HOH HOH . L 6 HOH A 63 207 64 HOH HOH . L 6 HOH A 64 208 66 HOH HOH . L 6 HOH A 65 209 73 HOH HOH . L 6 HOH A 66 210 75 HOH HOH . L 6 HOH A 67 211 77 HOH HOH . L 6 HOH A 68 212 78 HOH HOH . L 6 HOH A 69 213 79 HOH HOH . L 6 HOH A 70 214 214 HOH HOH . L 6 HOH A 71 215 215 HOH HOH . L 6 HOH A 72 216 216 HOH HOH . L 6 HOH A 73 217 217 HOH HOH . L 6 HOH A 74 218 218 HOH HOH . L 6 HOH A 75 219 219 HOH HOH . L 6 HOH A 76 220 80 HOH HOH . L 6 HOH A 77 221 81 HOH HOH . L 6 HOH A 78 222 82 HOH HOH . L 6 HOH A 79 223 83 HOH HOH . L 6 HOH A 80 224 84 HOH HOH . L 6 HOH A 81 225 86 HOH HOH . L 6 HOH A 82 226 88 HOH HOH . L 6 HOH A 83 227 90 HOH HOH . L 6 HOH A 84 228 94 HOH HOH . L 6 HOH A 85 229 229 HOH HOH . L 6 HOH A 86 230 230 HOH HOH . L 6 HOH A 87 231 231 HOH HOH . L 6 HOH A 88 232 232 HOH HOH . L 6 HOH A 89 233 233 HOH HOH . L 6 HOH A 90 234 234 HOH HOH . L 6 HOH A 91 235 97 HOH HOH . L 6 HOH A 92 236 98 HOH HOH . L 6 HOH A 93 237 100 HOH HOH . L 6 HOH A 94 238 101 HOH HOH . L 6 HOH A 95 239 102 HOH HOH . L 6 HOH A 96 240 103 HOH HOH . L 6 HOH A 97 241 107 HOH HOH . L 6 HOH A 98 242 108 HOH HOH . L 6 HOH A 99 243 110 HOH HOH . L 6 HOH A 100 244 112 HOH HOH . L 6 HOH A 101 245 113 HOH HOH . L 6 HOH A 102 246 115 HOH HOH . L 6 HOH A 103 247 120 HOH HOH . L 6 HOH A 104 248 122 HOH HOH . L 6 HOH A 105 249 124 HOH HOH . L 6 HOH A 106 250 128 HOH HOH . L 6 HOH A 107 251 131 HOH HOH . L 6 HOH A 108 252 132 HOH HOH . L 6 HOH A 109 253 134 HOH HOH . L 6 HOH A 110 254 136 HOH HOH . L 6 HOH A 111 255 137 HOH HOH . L 6 HOH A 112 256 139 HOH HOH . L 6 HOH A 113 257 142 HOH HOH . L 6 HOH A 114 258 143 HOH HOH . L 6 HOH A 115 259 145 HOH HOH . M 6 HOH B 1 139 1 HOH HOH . M 6 HOH B 2 140 2 HOH HOH . M 6 HOH B 3 142 5 HOH HOH . M 6 HOH B 4 145 6 HOH HOH . M 6 HOH B 5 146 146 HOH HOH . M 6 HOH B 6 147 147 HOH HOH . M 6 HOH B 7 148 8 HOH HOH . M 6 HOH B 8 149 9 HOH HOH . M 6 HOH B 9 150 10 HOH HOH . M 6 HOH B 10 151 151 HOH HOH . M 6 HOH B 11 152 12 HOH HOH . M 6 HOH B 12 153 16 HOH HOH . M 6 HOH B 13 154 154 HOH HOH . M 6 HOH B 14 155 19 HOH HOH . M 6 HOH B 15 156 156 HOH HOH . M 6 HOH B 16 157 20 HOH HOH . M 6 HOH B 17 158 21 HOH HOH . M 6 HOH B 18 159 24 HOH HOH . M 6 HOH B 19 160 160 HOH HOH . M 6 HOH B 20 161 161 HOH HOH . M 6 HOH B 21 162 162 HOH HOH . M 6 HOH B 22 163 163 HOH HOH . M 6 HOH B 23 164 25 HOH HOH . M 6 HOH B 24 165 165 HOH HOH . M 6 HOH B 25 166 166 HOH HOH . M 6 HOH B 26 167 167 HOH HOH . M 6 HOH B 27 168 26 HOH HOH . M 6 HOH B 28 169 30 HOH HOH . M 6 HOH B 29 170 170 HOH HOH . M 6 HOH B 30 171 171 HOH HOH . M 6 HOH B 31 172 172 HOH HOH . M 6 HOH B 32 173 31 HOH HOH . M 6 HOH B 33 174 174 HOH HOH . M 6 HOH B 34 175 175 HOH HOH . M 6 HOH B 35 176 33 HOH HOH . M 6 HOH B 36 177 34 HOH HOH . M 6 HOH B 37 178 178 HOH HOH . M 6 HOH B 38 179 35 HOH HOH . M 6 HOH B 39 180 39 HOH HOH . M 6 HOH B 40 181 42 HOH HOH . M 6 HOH B 41 182 43 HOH HOH . M 6 HOH B 42 183 183 HOH HOH . M 6 HOH B 43 184 184 HOH HOH . M 6 HOH B 44 185 185 HOH HOH . M 6 HOH B 45 186 45 HOH HOH . M 6 HOH B 46 187 187 HOH HOH . M 6 HOH B 47 188 46 HOH HOH . M 6 HOH B 48 189 47 HOH HOH . M 6 HOH B 49 190 190 HOH HOH . M 6 HOH B 50 191 191 HOH HOH . M 6 HOH B 51 192 192 HOH HOH . M 6 HOH B 52 193 50 HOH HOH . M 6 HOH B 53 194 194 HOH HOH . M 6 HOH B 54 195 51 HOH HOH . M 6 HOH B 55 196 54 HOH HOH . M 6 HOH B 56 197 197 HOH HOH . M 6 HOH B 57 198 198 HOH HOH . M 6 HOH B 58 199 59 HOH HOH . M 6 HOH B 59 200 60 HOH HOH . M 6 HOH B 60 201 201 HOH HOH . M 6 HOH B 61 202 202 HOH HOH . M 6 HOH B 62 203 62 HOH HOH . M 6 HOH B 63 204 65 HOH HOH . M 6 HOH B 64 205 67 HOH HOH . M 6 HOH B 65 206 206 HOH HOH . M 6 HOH B 66 207 207 HOH HOH . M 6 HOH B 67 208 208 HOH HOH . M 6 HOH B 68 209 209 HOH HOH . M 6 HOH B 69 210 210 HOH HOH . M 6 HOH B 70 211 211 HOH HOH . M 6 HOH B 71 212 212 HOH HOH . M 6 HOH B 72 213 213 HOH HOH . M 6 HOH B 73 214 68 HOH HOH . M 6 HOH B 74 215 69 HOH HOH . M 6 HOH B 75 216 70 HOH HOH . M 6 HOH B 76 217 71 HOH HOH . M 6 HOH B 77 218 72 HOH HOH . M 6 HOH B 78 219 74 HOH HOH . M 6 HOH B 79 220 220 HOH HOH . M 6 HOH B 80 221 221 HOH HOH . M 6 HOH B 81 222 222 HOH HOH . M 6 HOH B 82 223 223 HOH HOH . M 6 HOH B 83 224 224 HOH HOH . M 6 HOH B 84 225 225 HOH HOH . M 6 HOH B 85 226 226 HOH HOH . M 6 HOH B 86 227 227 HOH HOH . M 6 HOH B 87 228 228 HOH HOH . M 6 HOH B 88 229 76 HOH HOH . M 6 HOH B 89 230 85 HOH HOH . M 6 HOH B 90 231 87 HOH HOH . M 6 HOH B 91 232 89 HOH HOH . M 6 HOH B 92 233 91 HOH HOH . M 6 HOH B 93 234 92 HOH HOH . M 6 HOH B 94 235 235 HOH HOH . M 6 HOH B 95 236 236 HOH HOH . M 6 HOH B 96 237 237 HOH HOH . M 6 HOH B 97 238 238 HOH HOH . M 6 HOH B 98 239 239 HOH HOH . M 6 HOH B 99 240 240 HOH HOH . M 6 HOH B 100 241 241 HOH HOH . M 6 HOH B 101 242 242 HOH HOH . M 6 HOH B 102 243 243 HOH HOH . M 6 HOH B 103 244 244 HOH HOH . M 6 HOH B 104 245 93 HOH HOH . M 6 HOH B 105 246 95 HOH HOH . M 6 HOH B 106 247 96 HOH HOH . M 6 HOH B 107 248 99 HOH HOH . M 6 HOH B 108 249 104 HOH HOH . M 6 HOH B 109 250 105 HOH HOH . M 6 HOH B 110 251 106 HOH HOH . M 6 HOH B 111 252 109 HOH HOH . M 6 HOH B 112 253 111 HOH HOH . M 6 HOH B 113 254 114 HOH HOH . M 6 HOH B 114 255 116 HOH HOH . M 6 HOH B 115 256 117 HOH HOH . M 6 HOH B 116 257 118 HOH HOH . M 6 HOH B 117 258 119 HOH HOH . M 6 HOH B 118 259 121 HOH HOH . M 6 HOH B 119 260 123 HOH HOH . M 6 HOH B 120 261 125 HOH HOH . M 6 HOH B 121 262 126 HOH HOH . M 6 HOH B 122 263 127 HOH HOH . M 6 HOH B 123 264 129 HOH HOH . M 6 HOH B 124 265 130 HOH HOH . M 6 HOH B 125 266 133 HOH HOH . M 6 HOH B 126 267 135 HOH HOH . M 6 HOH B 127 268 138 HOH HOH . M 6 HOH B 128 269 141 HOH HOH . M 6 HOH B 129 270 144 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 GOL . . . H 3 12.33 5.803 21.662 1 53.62 ? C1 GOL 139 A 1 HETATM 2 O O1 GOL . . . H 3 11.86 5.961 20.332 1 30.07 ? O1 GOL 139 A 1 HETATM 3 C C2 GOL . . . H 3 12.127 4.383 22.197 1 60.16 ? C2 GOL 139 A 1 HETATM 4 O O2 GOL . . . H 3 11.855 3.511 21.124 1 59.01 ? O2 GOL 139 A 1 HETATM 5 C C3 GOL . . . H 3 10.966 4.334 23.187 1 63.94 ? C3 GOL 139 A 1 HETATM 6 O O3 GOL . . . H 3 11.165 3.317 24.147 1 57.38 ? O3 GOL 139 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #