data_1UBZ # _model_server_result.job_id W7FfCWvLMuT-EdJ97m4jpQ _model_server_result.datetime_utc '2024-11-16 00:28:21' _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 1ubz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":135}' # _entry.id 1UBZ # _exptl.entry_id 1UBZ _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 90 _cell.angle_gamma 90 _cell.entry_id 1UBZ _cell.length_a 56.33 _cell.length_b 61 _cell.length_c 32.71 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1UBZ _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 E N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GAL _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG ? 132 NAG 2 n B GAL 2 B 2 GAL ? 131 GAL 2 n C NAG 1 C 1 NAG ? 134 NAG 2 n C GAL 2 C 2 GAL ? 133 GAL # 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 6 A CYS 6 1_555 A SG CYS 128 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? disulf ? disulf2 A SG CYS 30 A CYS 30 1_555 A SG CYS 116 A CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? disulf ? disulf3 A SG CYS 65 A CYS 65 1_555 A SG CYS 81 A CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf4 A SG CYS 77 A CYS 77 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? covale ? covale1 A OE1 GLU 35 A GLU 35 1_555 E C1 GOL . A GOL 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.501 ? covale ? covale2 A OD1 ASP 53 A ASP 53 1_555 D C1 GOL . A GOL 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.475 ? covale ? covale3 D O3 GOL . A GOL 135 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? covale ? covale4 E O3 GOL . A GOL 136 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? covale ? covale5 B O4 NAG . B NAG 1 1_555 B C1 GAL . B GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.38 ? covale ? covale6 C O4 NAG . C NAG 1 1_555 C C1 GAL . C GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.409 ? # _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 # 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 O1 GOL sing 153 n n C1 C2 GOL sing 154 n n C1 H11 GOL sing 155 n n C1 H12 GOL sing 156 n n O1 HO1 GOL sing 157 n n C2 O2 GOL sing 158 n n C2 C3 GOL sing 159 n n C2 H2 GOL sing 160 n n O2 HO2 GOL sing 161 n n C3 O3 GOL sing 162 n n C3 H31 GOL sing 163 n n C3 H32 GOL sing 164 n n O3 HO3 GOL sing 165 n n # _atom_sites.entry_id 1UBZ _atom_sites.fract_transf_matrix[1][1] 0.017753 _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] 0.016393 _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] 0.030572 _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 D 3 GOL A 1 135 135 GOL GOL . E 3 GOL A 1 136 136 GOL GOL . F 4 HOH A 1 137 137 HOH HOH . F 4 HOH A 2 138 138 HOH HOH . F 4 HOH A 3 139 139 HOH HOH . F 4 HOH A 4 140 140 HOH HOH . F 4 HOH A 5 141 141 HOH HOH . F 4 HOH A 6 142 142 HOH HOH . F 4 HOH A 7 143 143 HOH HOH . F 4 HOH A 8 144 144 HOH HOH . F 4 HOH A 9 145 145 HOH HOH . F 4 HOH A 10 146 146 HOH HOH . F 4 HOH A 11 147 147 HOH HOH . F 4 HOH A 12 148 148 HOH HOH . F 4 HOH A 13 149 149 HOH HOH . F 4 HOH A 14 150 150 HOH HOH . F 4 HOH A 15 151 151 HOH HOH . F 4 HOH A 16 152 152 HOH HOH . F 4 HOH A 17 153 153 HOH HOH . F 4 HOH A 18 154 154 HOH HOH . F 4 HOH A 19 155 155 HOH HOH . F 4 HOH A 20 156 156 HOH HOH . F 4 HOH A 21 157 157 HOH HOH . F 4 HOH A 22 158 158 HOH HOH . F 4 HOH A 23 159 159 HOH HOH . F 4 HOH A 24 160 160 HOH HOH . F 4 HOH A 25 161 161 HOH HOH . F 4 HOH A 26 162 162 HOH HOH . F 4 HOH A 27 163 163 HOH HOH . F 4 HOH A 28 164 164 HOH HOH . F 4 HOH A 29 165 165 HOH HOH . F 4 HOH A 30 166 166 HOH HOH . F 4 HOH A 31 167 167 HOH HOH . F 4 HOH A 32 168 168 HOH HOH . F 4 HOH A 33 169 169 HOH HOH . F 4 HOH A 34 170 170 HOH HOH . F 4 HOH A 35 171 171 HOH HOH . F 4 HOH A 36 172 172 HOH HOH . F 4 HOH A 37 173 173 HOH HOH . F 4 HOH A 38 174 174 HOH HOH . F 4 HOH A 39 175 175 HOH HOH . F 4 HOH A 40 176 176 HOH HOH . F 4 HOH A 41 177 177 HOH HOH . F 4 HOH A 42 178 178 HOH HOH . F 4 HOH A 43 179 179 HOH HOH . F 4 HOH A 44 180 180 HOH HOH . F 4 HOH A 45 181 181 HOH HOH . F 4 HOH A 46 182 182 HOH HOH . F 4 HOH A 47 183 183 HOH HOH . F 4 HOH A 48 184 184 HOH HOH . F 4 HOH A 49 185 185 HOH HOH . F 4 HOH A 50 186 186 HOH HOH . F 4 HOH A 51 187 187 HOH HOH . F 4 HOH A 52 188 188 HOH HOH . F 4 HOH A 53 189 189 HOH HOH . F 4 HOH A 54 190 190 HOH HOH . F 4 HOH A 55 191 191 HOH HOH . F 4 HOH A 56 192 192 HOH HOH . F 4 HOH A 57 193 193 HOH HOH . F 4 HOH A 58 194 194 HOH HOH . F 4 HOH A 59 195 195 HOH HOH . F 4 HOH A 60 196 196 HOH HOH . F 4 HOH A 61 197 197 HOH HOH . F 4 HOH A 62 198 198 HOH HOH . F 4 HOH A 63 199 199 HOH HOH . F 4 HOH A 64 200 200 HOH HOH . F 4 HOH A 65 201 201 HOH HOH . F 4 HOH A 66 202 202 HOH HOH . F 4 HOH A 67 203 203 HOH HOH . F 4 HOH A 68 204 204 HOH HOH . F 4 HOH A 69 205 205 HOH HOH . F 4 HOH A 70 206 206 HOH HOH . F 4 HOH A 71 207 207 HOH HOH . F 4 HOH A 72 208 208 HOH HOH . F 4 HOH A 73 209 209 HOH HOH . F 4 HOH A 74 210 210 HOH HOH . F 4 HOH A 75 211 211 HOH HOH . F 4 HOH A 76 212 212 HOH HOH . F 4 HOH A 77 213 213 HOH HOH . F 4 HOH A 78 214 214 HOH HOH . F 4 HOH A 79 215 215 HOH HOH . F 4 HOH A 80 216 216 HOH HOH . F 4 HOH A 81 217 217 HOH HOH . F 4 HOH A 82 218 218 HOH HOH . F 4 HOH A 83 219 219 HOH HOH . F 4 HOH A 84 220 220 HOH HOH . F 4 HOH A 85 221 221 HOH HOH . F 4 HOH A 86 222 222 HOH HOH . F 4 HOH A 87 223 223 HOH HOH . F 4 HOH A 88 224 224 HOH HOH . F 4 HOH A 89 225 225 HOH HOH . F 4 HOH A 90 226 226 HOH HOH . F 4 HOH A 91 227 227 HOH HOH . F 4 HOH A 92 228 228 HOH HOH . F 4 HOH A 93 229 229 HOH HOH . F 4 HOH A 94 230 230 HOH HOH . F 4 HOH A 95 231 231 HOH HOH . F 4 HOH A 96 232 232 HOH HOH . F 4 HOH A 97 233 233 HOH HOH . F 4 HOH A 98 234 234 HOH HOH . F 4 HOH A 99 235 235 HOH HOH . F 4 HOH A 100 236 236 HOH HOH . F 4 HOH A 101 237 237 HOH HOH . F 4 HOH A 102 238 238 HOH HOH . F 4 HOH A 103 239 239 HOH HOH . F 4 HOH A 104 240 240 HOH HOH . F 4 HOH A 105 241 241 HOH HOH . F 4 HOH A 106 242 242 HOH HOH . F 4 HOH A 107 243 243 HOH HOH . F 4 HOH A 108 244 244 HOH HOH . F 4 HOH A 109 245 245 HOH HOH . F 4 HOH A 110 246 246 HOH HOH . F 4 HOH A 111 247 247 HOH HOH . F 4 HOH A 112 248 248 HOH HOH . F 4 HOH A 113 249 249 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 . . . D 3 11.928 5.916 28.81 1 9.06 ? C1 GOL 135 A 1 HETATM 2 C C2 GOL . . . D 3 12.005 4.406 29.081 1 10.84 ? C2 GOL 135 A 1 HETATM 3 O O2 GOL . . . D 3 11.982 3.681 27.864 1 10.94 ? O2 GOL 135 A 1 HETATM 4 C C3 GOL . . . D 3 13.264 4.034 29.852 1 10.53 ? C3 GOL 135 A 1 HETATM 5 O O3 GOL . . . D 3 13.468 4.968 30.924 1 8.12 ? O3 GOL 135 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 5 #