data_5GYD # _model_server_result.job_id pU5ujPUYgD8Ypxwo0_AE9A _model_server_result.datetime_utc '2025-02-17 17:27:38' _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 5gyd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 5GYD # _exptl.entry_id 5GYD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 744.034 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine _entity.pdbx_number_of_molecules 5 _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 5GYD _cell.length_a 142.592 _cell.length_b 219.073 _cell.length_c 73.097 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GYD _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F 1 1 C,D,G,H,I 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 E N N ? 2 F N N ? 2 G N N ? 2 H N N ? 2 I N N # _chem_comp.formula 'C41 H78 N O8 P' _chem_comp.formula_weight 744.034 _chem_comp.id PEE _chem_comp.mon_nstd_flag n _chem_comp.name 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DOPE # 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 N C5 PEE sing 235 n n C5 C4 PEE sing 236 n n C4 O4P PEE sing 237 n n O4P P PEE sing 238 n n O1P P PEE doub 239 n n C1 O3P PEE sing 240 n n C1 C2 PEE sing 241 n n O3P P PEE sing 242 n n P O2P PEE sing 243 n n C2 C3 PEE sing 244 n n C2 O2 PEE sing 245 n n C3 O3 PEE sing 246 n n O2 C10 PEE sing 247 n n C31 C30 PEE sing 248 n n C31 C32 PEE sing 249 n n C33 C32 PEE sing 250 n n C33 C34 PEE sing 251 n n C30 O3 PEE sing 252 n n C30 O5 PEE doub 253 n n C10 O4 PEE doub 254 n n C10 C11 PEE sing 255 n n C34 C35 PEE sing 256 n n C11 C12 PEE sing 257 n n C35 C36 PEE sing 258 n n C36 C37 PEE sing 259 n n C37 C38 PEE sing 260 n n C38 C39 PEE doub 261 z n C12 C13 PEE sing 262 n n C39 C40 PEE sing 263 n n C13 C14 PEE sing 264 n n C14 C15 PEE sing 265 n n C40 C41 PEE sing 266 n n C15 C16 PEE sing 267 n n C41 C42 PEE sing 268 n n C16 C17 PEE sing 269 n n C42 C43 PEE sing 270 n n C17 C18 PEE sing 271 n n C43 C44 PEE sing 272 n n C18 C19 PEE doub 273 z n C46 C47 PEE sing 274 n n C46 C45 PEE sing 275 n n C44 C45 PEE sing 276 n n C19 C20 PEE sing 277 n n C20 C21 PEE sing 278 n n C21 C22 PEE sing 279 n n C22 C23 PEE sing 280 n n C23 C24 PEE sing 281 n n C24 C25 PEE sing 282 n n C26 C25 PEE sing 283 n n C26 C27 PEE sing 284 n n C27 H7 PEE sing 285 n n C27 H8 PEE sing 286 n n C27 H82 PEE sing 287 n n C26 H5 PEE sing 288 n n C26 H6 PEE sing 289 n n C25 H12 PEE sing 290 n n C25 H4 PEE sing 291 n n C24 H10 PEE sing 292 n n C24 H11 PEE sing 293 n n C23 H83 PEE sing 294 n n C23 H9 PEE sing 295 n n C22 H2 PEE sing 296 n n C22 H3 PEE sing 297 n n C21 H14 PEE sing 298 n n C21 H1 PEE sing 299 n n C20 H16 PEE sing 300 n n C20 H13 PEE sing 301 n n C19 H18 PEE sing 302 n n C18 H20 PEE sing 303 n n C17 H22 PEE sing 304 n n C17 H19 PEE sing 305 n n C16 H21 PEE sing 306 n n C16 H28 PEE sing 307 n n C15 H23 PEE sing 308 n n C15 H24 PEE sing 309 n n C14 H25 PEE sing 310 n n C14 H26 PEE sing 311 n n C13 H17 PEE sing 312 n n C13 H27 PEE sing 313 n n C12 H15 PEE sing 314 n n C12 H29 PEE sing 315 n n C11 H30 PEE sing 316 n n C11 H31 PEE sing 317 n n C2 H32 PEE sing 318 n n C1 H33 PEE sing 319 n n C1 H34 PEE sing 320 n n O2P H35 PEE sing 321 n n C4 H36 PEE sing 322 n n C4 H37 PEE sing 323 n n C5 H38 PEE sing 324 n n C5 H39 PEE sing 325 n n N H40 PEE sing 326 n n N H41 PEE sing 327 n n C3 H43 PEE sing 328 n n C3 H44 PEE sing 329 n n C31 H45 PEE sing 330 n n C31 H46 PEE sing 331 n n C32 H47 PEE sing 332 n n C32 H48 PEE sing 333 n n C33 H49 PEE sing 334 n n C33 H50 PEE sing 335 n n C34 H51 PEE sing 336 n n C34 H52 PEE sing 337 n n C35 H53 PEE sing 338 n n C35 H54 PEE sing 339 n n C36 H55 PEE sing 340 n n C36 H56 PEE sing 341 n n C37 H57 PEE sing 342 n n C37 H58 PEE sing 343 n n C38 H59 PEE sing 344 n n C39 H60 PEE sing 345 n n C40 H81 PEE sing 346 n n C40 H61 PEE sing 347 n n C41 H80 PEE sing 348 n n C41 H62 PEE sing 349 n n C42 H63 PEE sing 350 n n C42 H64 PEE sing 351 n n C43 H65 PEE sing 352 n n C43 H66 PEE sing 353 n n C44 H67 PEE sing 354 n n C44 H68 PEE sing 355 n n C45 H69 PEE sing 356 n n C45 H70 PEE sing 357 n n C46 H71 PEE sing 358 n n C46 H72 PEE sing 359 n n C47 H73 PEE sing 360 n n C47 H74 PEE sing 361 n n C47 H75 PEE sing 362 n n # _atom_sites.entry_id 5GYD _atom_sites.fract_transf_matrix[1][1] 0.007013 _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] 0.004565 _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] 0.01368 _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 E 2 PEE A 1 301 1 PEE PEE . F 2 PEE B 1 301 1 PEE PEE . G 2 PEE C 1 301 1 PEE PEE . H 2 PEE D 1 301 1 PEE PEE . I 2 PEE D 1 302 1 PEE PEE . # 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 C27 PEE . . . E 2 50.39 103.193 4.744 1 94.22 ? C27 PEE 301 A 1 HETATM 2 C C26 PEE . . . E 2 49.513 103.715 3.609 1 104.63 ? C26 PEE 301 A 1 HETATM 3 C C25 PEE . . . E 2 50.007 103.146 2.281 1 115.45 ? C25 PEE 301 A 1 HETATM 4 C C24 PEE . . . E 2 49.065 103.578 1.159 1 113.22 ? C24 PEE 301 A 1 HETATM 5 C C23 PEE . . . E 2 49.785 103.464 -0.182 1 112.74 ? C23 PEE 301 A 1 HETATM 6 C C22 PEE . . . E 2 48.995 102.54 -1.106 1 119.19 ? C22 PEE 301 A 1 HETATM 7 C C21 PEE . . . E 2 49.921 101.456 -1.655 1 131.92 ? C21 PEE 301 A 1 HETATM 8 C C20 PEE . . . E 2 49.704 100.16 -0.877 1 146.92 ? C20 PEE 301 A 1 HETATM 9 C C19 PEE . . . E 2 50.949 99.283 -0.992 1 152.72 ? C19 PEE 301 A 1 HETATM 10 C C18 PEE . . . E 2 50.945 98.244 0.128 1 146.33 ? C18 PEE 301 A 1 HETATM 11 C C17 PEE . . . E 2 52.384 97.873 0.484 1 137.37 ? C17 PEE 301 A 1 HETATM 12 C C16 PEE . . . E 2 52.72 98.414 1.872 1 138.08 ? C16 PEE 301 A 1 HETATM 13 C C15 PEE . . . E 2 52.634 97.283 2.894 1 140.06 ? C15 PEE 301 A 1 HETATM 14 C C14 PEE . . . E 2 53.02 97.812 4.272 1 138.08 ? C14 PEE 301 A 1 HETATM 15 C C13 PEE . . . E 2 52.341 96.97 5.35 1 139.06 ? C13 PEE 301 A 1 HETATM 16 C C12 PEE . . . E 2 53.352 96.631 6.443 1 145.01 ? C12 PEE 301 A 1 HETATM 17 C C11 PEE . . . E 2 53.063 95.235 6.988 1 159.03 ? C11 PEE 301 A 1 HETATM 18 C C10 PEE . . . E 2 53.742 95.068 8.346 1 171.81 ? C10 PEE 301 A 1 HETATM 19 O O4 PEE . . . E 2 53.56 95.836 9.229 1 167.91 ? O4 PEE 301 A 1 HETATM 20 O O2 PEE . . . E 2 54.534 93.989 8.409 1 185.06 ? O2 PEE 301 A 1 HETATM 21 C C2 PEE . . . E 2 53.871 92.745 8.03 1 179.38 ? C2 PEE 301 A 1 HETATM 22 C C1 PEE . . . E 2 52.716 92.47 8.99 1 191.27 ? C1 PEE 301 A 1 HETATM 23 O O3P PEE . . . E 2 51.735 91.717 8.337 1 200.41 ? O3P PEE 301 A 1 HETATM 24 P P PEE . . . E 2 50.362 91.328 9.163 1 220.45 ? P PEE 301 A 1 HETATM 25 O O2P PEE . . . E 2 50.668 90.241 10.165 1 222.17 ? O2P PEE 301 A 1 HETATM 26 O O1P PEE . . . E 2 49.848 92.549 9.887 1 220.62 ? O1P PEE 301 A 1 HETATM 27 O O4P PEE . . . E 2 49.216 90.793 8.105 1 193.37 ? O4P PEE 301 A 1 HETATM 28 C C4 PEE . . . E 2 49.224 89.443 7.74 1 176.08 ? C4 PEE 301 A 1 HETATM 29 C C5 PEE . . . E 2 48.614 89.288 6.348 1 163.42 ? C5 PEE 301 A 1 HETATM 30 N N PEE . . . E 2 47.26 89.813 6.352 1 155.68 ? N PEE 301 A 1 HETATM 31 C C3 PEE . . . E 2 53.331 92.87 6.607 1 165.3 ? C3 PEE 301 A 1 HETATM 32 O O3 PEE . . . E 2 54.278 92.287 5.677 1 150.08 ? O3 PEE 301 A 1 HETATM 33 C C30 PEE . . . E 2 53.715 91.757 4.595 1 137.4 ? C30 PEE 301 A 1 HETATM 34 O O5 PEE . . . E 2 52.795 91.011 4.652 1 141.95 ? O5 PEE 301 A 1 HETATM 35 C C31 PEE . . . E 2 54.348 92.186 3.275 1 123.29 ? C31 PEE 301 A 1 HETATM 36 C C32 PEE . . . E 2 53.438 91.782 2.119 1 118.7 ? C32 PEE 301 A 1 HETATM 37 C C33 PEE . . . E 2 53.287 92.955 1.156 1 123.93 ? C33 PEE 301 A 1 HETATM 38 C C34 PEE . . . E 2 54.664 93.384 0.657 1 126.19 ? C34 PEE 301 A 1 HETATM 39 C C35 PEE . . . E 2 54.589 93.701 -0.834 1 128.5 ? C35 PEE 301 A 1 HETATM 40 C C36 PEE . . . E 2 54.062 95.121 -1.026 1 122.78 ? C36 PEE 301 A 1 HETATM 41 C C37 PEE . . . E 2 54.338 95.577 -2.455 1 122.98 ? C37 PEE 301 A 1 HETATM 42 C C38 PEE . . . E 2 53.395 94.854 -3.412 1 125.54 ? C38 PEE 301 A 1 HETATM 43 C C39 PEE . . . E 2 53.414 95.55 -4.769 1 126.97 ? C39 PEE 301 A 1 HETATM 44 C C40 PEE . . . E 2 54.137 96.888 -4.644 1 140.79 ? C40 PEE 301 A 1 HETATM 45 C C41 PEE . . . E 2 53.119 97.993 -4.368 1 140.56 ? C41 PEE 301 A 1 HETATM 46 C C42 PEE . . . E 2 53.84 99.333 -4.256 1 125.12 ? C42 PEE 301 A 1 HETATM 47 C C43 PEE . . . E 2 53.619 99.915 -2.862 1 122.51 ? C43 PEE 301 A 1 HETATM 48 C C44 PEE . . . E 2 54.966 100.285 -2.245 1 118.63 ? C44 PEE 301 A 1 HETATM 49 C C45 PEE . . . E 2 54.791 101.493 -1.327 1 113.25 ? C45 PEE 301 A 1 HETATM 50 C C46 PEE . . . E 2 53.882 101.116 -0.158 1 101.21 ? C46 PEE 301 A 1 HETATM 51 C C47 PEE . . . E 2 54.176 102.029 1.031 1 88.78 ? C47 PEE 301 A 1 # _model_server_stats.io_time_ms 77 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 411 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 51 #