data_5KYM # _model_server_result.job_id oB89vxc-_GwOAhX263gAFw _model_server_result.datetime_utc '2024-12-09 16:16:22' _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 5kym # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5KYM # _exptl.entry_id 5KYM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 706.994 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1-HEPTADECANOYL-2-TRIDECANOYL-3-GLYCEROL-PHOSPHONYL CHOLINE' _entity.pdbx_number_of_molecules 6 _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 5KYM _cell.length_a 173.836 _cell.length_b 173.836 _cell.length_c 173.836 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KYM _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 3' # 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,D,E,F,L 1 1 B,G,H,I,J,K 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 D N N ? 2 E N N ? 2 G N N ? 2 H N N ? 2 I N N # _chem_comp.formula 'C38 H77 N O8 P 1' _chem_comp.formula_weight 706.994 _chem_comp.id HGX _chem_comp.mon_nstd_flag . _chem_comp.name '1-HEPTADECANOYL-2-TRIDECANOYL-3-GLYCEROL-PHOSPHONYL CHOLINE' _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 O11 C11 HGX doub 144 n n C11 C12 HGX sing 145 n n C11 O3 HGX sing 146 n n C12 C13 HGX sing 147 n n C12 H121 HGX sing 148 n n C12 H122 HGX sing 149 n n C13 C14 HGX sing 150 n n C13 H131 HGX sing 151 n n C13 H132 HGX sing 152 n n C14 C15 HGX sing 153 n n C14 H141 HGX sing 154 n n C14 H142 HGX sing 155 n n C15 C16 HGX sing 156 n n C15 H151 HGX sing 157 n n C15 H152 HGX sing 158 n n C16 C17 HGX sing 159 n n C16 H161 HGX sing 160 n n C16 H162 HGX sing 161 n n C17 C18 HGX sing 162 n n C17 H171 HGX sing 163 n n C17 H172 HGX sing 164 n n C18 C19 HGX sing 165 n n C18 H181 HGX sing 166 n n C18 H182 HGX sing 167 n n C19 C20 HGX sing 168 n n C19 H191 HGX sing 169 n n C19 H192 HGX sing 170 n n C20 C21 HGX sing 171 n n C20 H201 HGX sing 172 n n C20 H202 HGX sing 173 n n C21 C22 HGX sing 174 n n C21 H211 HGX sing 175 n n C21 H212 HGX sing 176 n n C22 C23 HGX sing 177 n n C22 H221 HGX sing 178 n n C22 H222 HGX sing 179 n n C23 H231 HGX sing 180 n n C23 H232 HGX sing 181 n n C23 H233 HGX sing 182 n n O3 C3 HGX sing 183 n n C3 C2 HGX sing 184 n n C3 H31 HGX sing 185 n n C3 H32 HGX sing 186 n n C2 C1 HGX sing 187 n n C2 O2 HGX sing 188 n n C2 H2 HGX sing 189 n n C1 O3P HGX sing 190 n n C1 H11 HGX sing 191 n n C1 H12 HGX sing 192 n n O3P P1 HGX sing 193 n n O2 C31 HGX sing 194 n n C31 O31 HGX doub 195 n n C31 C32 HGX sing 196 n n C32 C33 HGX sing 197 n n C32 H321 HGX sing 198 n n C32 H322 HGX sing 199 n n C33 C34 HGX sing 200 n n C33 H331 HGX sing 201 n n C33 H332 HGX sing 202 n n C34 C35 HGX sing 203 n n C34 H341 HGX sing 204 n n C34 H342 HGX sing 205 n n C35 C36 HGX sing 206 n n C35 H351 HGX sing 207 n n C35 H352 HGX sing 208 n n C36 C37 HGX sing 209 n n C36 H361 HGX sing 210 n n C36 H362 HGX sing 211 n n C37 C38 HGX sing 212 n n C37 H371 HGX sing 213 n n C37 H372 HGX sing 214 n n C38 C39 HGX sing 215 n n C38 H381 HGX sing 216 n n C38 H382 HGX sing 217 n n C39 C40 HGX sing 218 n n C39 H391 HGX sing 219 n n C39 H392 HGX sing 220 n n C40 C42 HGX sing 221 n n C40 H401 HGX sing 222 n n C40 H402 HGX sing 223 n n C42 C43 HGX sing 224 n n C42 H421 HGX sing 225 n n C42 H422 HGX sing 226 n n C43 C44 HGX sing 227 n n C43 H431 HGX sing 228 n n C43 H432 HGX sing 229 n n C44 C45 HGX sing 230 n n C44 H441 HGX sing 231 n n C44 H442 HGX sing 232 n n C45 C46 HGX sing 233 n n C45 H451 HGX sing 234 n n C45 H452 HGX sing 235 n n C46 C47 HGX sing 236 n n C46 H461 HGX sing 237 n n C46 H462 HGX sing 238 n n C47 C48 HGX sing 239 n n C47 H471 HGX sing 240 n n C47 H472 HGX sing 241 n n C48 H481 HGX sing 242 n n C48 H482 HGX sing 243 n n C48 H483 HGX sing 244 n n O1 P1 HGX sing 245 n n O1 HO1 HGX sing 246 n n P1 O4 HGX doub 247 n n P1 O5 HGX sing 248 n n O5 C4 HGX sing 249 n n C4 C5 HGX sing 250 n n C4 H41 HGX sing 251 n n C4 H42 HGX sing 252 n n C5 N1 HGX sing 253 n n C5 H51 HGX sing 254 n n C5 H52 HGX sing 255 n n N1 C6 HGX sing 256 n n N1 C7 HGX sing 257 n n N1 C8 HGX sing 258 n n C6 H61 HGX sing 259 n n C6 H62 HGX sing 260 n n C6 H63 HGX sing 261 n n C7 H71 HGX sing 262 n n C7 H72 HGX sing 263 n n C7 H73 HGX sing 264 n n C8 H81 HGX sing 265 n n C8 H82 HGX sing 266 n n C8 H83 HGX sing 267 n n # _atom_sites.entry_id 5KYM _atom_sites.fract_transf_matrix[1][1] 0.005753 _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] 0.005753 _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] 0.005753 _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 HGX A 1 301 1 HGX HGX . D 2 HGX A 1 302 2 HGX HGX . E 2 HGX A 1 303 3 HGX HGX . F 3 DD9 A 1 304 1 DD9 GK2 . G 2 HGX B 1 301 4 HGX HGX . H 2 HGX B 1 302 5 HGX HGX . I 2 HGX B 1 303 6 HGX HGX . J 4 LMT B 1 304 1 LMT LMT . K 3 DD9 B 1 305 2 DD9 GK2 . L 5 HOH A 1 401 1 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 O11 HGX . . . C 2 56.267 61.903 71.684 1 84.83 ? O11 HGX 301 A 1 HETATM 2 C C11 HGX . . . C 2 55.448 62.141 70.811 1 88.3 ? C11 HGX 301 A 1 HETATM 3 C C12 HGX . . . C 2 54.904 60.977 69.986 1 83.19 ? C12 HGX 301 A 1 HETATM 4 C C13 HGX . . . C 2 54.01 61.356 68.804 1 75.49 ? C13 HGX 301 A 1 HETATM 5 C C14 HGX . . . C 2 53.919 60.282 67.716 1 70.75 ? C14 HGX 301 A 1 HETATM 6 C C15 HGX . . . C 2 52.483 60.169 67.182 1 71.38 ? C15 HGX 301 A 1 HETATM 7 C C16 HGX . . . C 2 52.266 59.209 65.996 1 70.6 ? C16 HGX 301 A 1 HETATM 8 C C17 HGX . . . C 2 50.867 59.306 65.367 1 69.76 ? C17 HGX 301 A 1 HETATM 9 C C18 HGX . . . C 2 49.75 59.629 66.369 1 66.72 ? C18 HGX 301 A 1 HETATM 10 O O3 HGX . . . C 2 55.047 63.533 70.61 1 101.91 ? O3 HGX 301 A 1 HETATM 11 C C3 HGX . . . C 2 55.714 64.646 71.233 1 105.13 ? C3 HGX 301 A 1 HETATM 12 C C2 HGX . . . C 2 56.934 65.109 70.432 1 104.92 ? C2 HGX 301 A 1 HETATM 13 C C1 HGX . . . C 2 57.8 66.068 71.275 1 110.46 ? C1 HGX 301 A 1 HETATM 14 O O3P HGX . . . C 2 57.142 67.331 71.475 1 126.79 ? O3P HGX 301 A 1 HETATM 15 O O2 HGX . . . C 2 56.446 65.725 69.231 1 97.07 ? O2 HGX 301 A 1 HETATM 16 C C31 HGX . . . C 2 57.313 65.679 68.052 1 95.83 ? C31 HGX 301 A 1 HETATM 17 O O31 HGX . . . C 2 58.535 65.659 68.209 1 103.6 ? O31 HGX 301 A 1 HETATM 18 C C32 HGX . . . C 2 56.705 65.709 66.651 1 81.77 ? C32 HGX 301 A 1 HETATM 19 C C33 HGX . . . C 2 56.054 64.382 66.254 1 74.31 ? C33 HGX 301 A 1 HETATM 20 C C34 HGX . . . C 2 55.622 64.361 64.781 1 69.93 ? C34 HGX 301 A 1 HETATM 21 C C35 HGX . . . C 2 54.278 63.633 64.599 1 73.71 ? C35 HGX 301 A 1 HETATM 22 C C36 HGX . . . C 2 53.61 63.742 63.209 1 72.42 ? C36 HGX 301 A 1 HETATM 23 C C37 HGX . . . C 2 52.503 62.681 63.058 1 71.82 ? C37 HGX 301 A 1 HETATM 24 C C38 HGX . . . C 2 51.36 62.993 62.077 1 77.29 ? C38 HGX 301 A 1 HETATM 25 C C39 HGX . . . C 2 50.077 62.222 62.455 1 79.72 ? C39 HGX 301 A 1 HETATM 26 C C40 HGX . . . C 2 48.939 62.252 61.422 1 76.37 ? C40 HGX 301 A 1 HETATM 27 O O1 HGX . . . C 2 58.502 67.788 73.544 1 147.17 ? O1 HGX 301 A 1 HETATM 28 P P1 HGX . . . C 2 57.636 68.483 72.516 1 149.44 ? P1 HGX 301 A 1 HETATM 29 O O4 HGX . . . C 2 56.433 69.298 72.96 1 148 ? O4 HGX 301 A 1 HETATM 30 O O5 HGX . . . C 2 58.577 69.497 71.66 1 139.67 ? O5 HGX 301 A 1 HETATM 31 C C4 HGX . . . C 2 59.409 70.505 72.258 1 116.74 ? C4 HGX 301 A 1 HETATM 32 C C5 HGX . . . C 2 60.713 70.653 71.476 1 98.96 ? C5 HGX 301 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #