data_2ZFE # _model_server_result.job_id BR4pqFZ1BcTxEXGgY9qJHA _model_server_result.datetime_utc '2024-11-27 22:08:47' _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 2zfe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":270}' # _entry.id 2ZFE # _exptl.entry_id 2ZFE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 653.157 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2,3-DI-PHYTANYL-GLYCEROL _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 120 _cell.entry_id 2ZFE _cell.length_a 102.41 _cell.length_b 102.41 _cell.length_c 112.47 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZFE _symmetry.cell_setting ? _symmetry.Int_Tables_number 177 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 6 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 102.41 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 51.205 88.689662 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 MAN GLC C1 O1 . O2 HO2 . sing 2 ? 2 3 2 SGA MAN C1 O1 . O6 HO6 . 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 GLC 1 B 1 GLC ? 400 GLC 2 n B MAN 2 B 2 MAN ? 410 MAN 2 n B SGA 3 B 3 SGA ? 420 SGA # 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 covale ? covale1 A NZ LYS 229 A LYS 216 1_555 C C15 RET . A RET 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.355 ? covale ? covale2 E O3 L2P . A L2P 270 1_555 B C1 GLC . B GLC 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 B O2 GLC . B GLC 1 1_555 B C1 MAN . B MAN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 B O6 MAN . B MAN 2 1_555 B C1 SGA . B SGA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? # _chem_comp.formula 'C43 H88 O3' _chem_comp.formula_weight 653.157 _chem_comp.id L2P _chem_comp.mon_nstd_flag . _chem_comp.name 2,3-DI-PHYTANYL-GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 1,2-DI-1-(3,7,11,15-TETRAMETHYL-HEXADECANE)-SN-GLYCEROL # 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 L2P sing 301 n n C1 C2 L2P sing 302 n n C1 H12 L2P sing 303 n n C1 H11 L2P sing 304 n n O1 C11 L2P sing 305 n n C2 O2 L2P sing 306 n n C2 C3 L2P sing 307 n n C2 H2 L2P sing 308 n n O2 C41 L2P sing 309 n n C3 O3 L2P sing 310 n n C3 H32 L2P sing 311 n n C3 H31 L2P sing 312 n n O3 H3O L2P sing 313 n n C11 C12 L2P sing 314 n n C11 H112 L2P sing 315 n n C11 H111 L2P sing 316 n n C12 C13 L2P sing 317 n n C12 H122 L2P sing 318 n n C12 H121 L2P sing 319 n n C13 C14 L2P sing 320 n n C13 C15 L2P sing 321 n n C13 H13 L2P sing 322 n n C14 H143 L2P sing 323 n n C14 H142 L2P sing 324 n n C14 H141 L2P sing 325 n n C15 C16 L2P sing 326 n n C15 H152 L2P sing 327 n n C15 H151 L2P sing 328 n n C16 C17 L2P sing 329 n n C16 H162 L2P sing 330 n n C16 H161 L2P sing 331 n n C17 C18 L2P sing 332 n n C17 H172 L2P sing 333 n n C17 H171 L2P sing 334 n n C18 C19 L2P sing 335 n n C18 C20 L2P sing 336 n n C18 H18 L2P sing 337 n n C19 H193 L2P sing 338 n n C19 H192 L2P sing 339 n n C19 H191 L2P sing 340 n n C20 C21 L2P sing 341 n n C20 H202 L2P sing 342 n n C20 H201 L2P sing 343 n n C21 C22 L2P sing 344 n n C21 H212 L2P sing 345 n n C21 H211 L2P sing 346 n n C22 C23 L2P sing 347 n n C22 H222 L2P sing 348 n n C22 H221 L2P sing 349 n n C23 C24 L2P sing 350 n n C23 C25 L2P sing 351 n n C23 H23 L2P sing 352 n n C24 H243 L2P sing 353 n n C24 H242 L2P sing 354 n n C24 H241 L2P sing 355 n n C25 C26 L2P sing 356 n n C25 H252 L2P sing 357 n n C25 H251 L2P sing 358 n n C26 C27 L2P sing 359 n n C26 H262 L2P sing 360 n n C26 H261 L2P sing 361 n n C27 C28 L2P sing 362 n n C27 H272 L2P sing 363 n n C27 H271 L2P sing 364 n n C28 C29 L2P sing 365 n n C28 C30 L2P sing 366 n n C28 H28 L2P sing 367 n n C29 H293 L2P sing 368 n n C29 H292 L2P sing 369 n n C29 H291 L2P sing 370 n n C30 H303 L2P sing 371 n n C30 H302 L2P sing 372 n n C30 H301 L2P sing 373 n n C41 C42 L2P sing 374 n n C41 H412 L2P sing 375 n n C41 H411 L2P sing 376 n n C42 C43 L2P sing 377 n n C42 H422 L2P sing 378 n n C42 H421 L2P sing 379 n n C43 C44 L2P sing 380 n n C43 C45 L2P sing 381 n n C43 H43 L2P sing 382 n n C44 H443 L2P sing 383 n n C44 H442 L2P sing 384 n n C44 H441 L2P sing 385 n n C45 C46 L2P sing 386 n n C45 H452 L2P sing 387 n n C45 H451 L2P sing 388 n n C46 C47 L2P sing 389 n n C46 H462 L2P sing 390 n n C46 H461 L2P sing 391 n n C47 C48 L2P sing 392 n n C47 H472 L2P sing 393 n n C47 H471 L2P sing 394 n n C48 C49 L2P sing 395 n n C48 C50 L2P sing 396 n n C48 H48 L2P sing 397 n n C49 H493 L2P sing 398 n n C49 H492 L2P sing 399 n n C49 H491 L2P sing 400 n n C50 C51 L2P sing 401 n n C50 H502 L2P sing 402 n n C50 H501 L2P sing 403 n n C51 C52 L2P sing 404 n n C51 H512 L2P sing 405 n n C51 H511 L2P sing 406 n n C52 C53 L2P sing 407 n n C52 H522 L2P sing 408 n n C52 H521 L2P sing 409 n n C53 C54 L2P sing 410 n n C53 C55 L2P sing 411 n n C53 H53 L2P sing 412 n n C54 H543 L2P sing 413 n n C54 H542 L2P sing 414 n n C54 H541 L2P sing 415 n n C55 C56 L2P sing 416 n n C55 H552 L2P sing 417 n n C55 H551 L2P sing 418 n n C56 C57 L2P sing 419 n n C56 H562 L2P sing 420 n n C56 H561 L2P sing 421 n n C57 C58 L2P sing 422 n n C57 H572 L2P sing 423 n n C57 H571 L2P sing 424 n n C58 C59 L2P sing 425 n n C58 C60 L2P sing 426 n n C58 H58 L2P sing 427 n n C59 H593 L2P sing 428 n n C59 H592 L2P sing 429 n n C59 H591 L2P sing 430 n n C60 H603 L2P sing 431 n n C60 H602 L2P sing 432 n n C60 H601 L2P sing 433 n n # _atom_sites.entry_id 2ZFE _atom_sites.fract_transf_matrix[1][1] 0.009765 _atom_sites.fract_transf_matrix[1][2] 0.005638 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011275 _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] 0.008891 _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 RET A 1 250 250 RET RET . D 4 L3P A 1 260 260 L3P L1P . E 5 L2P A 1 270 270 L2P LP2 . F 6 L1P A 1 280 280 L1P L1P . G 6 L1P A 1 290 290 L1P L1P . H 6 L1P A 1 300 300 L1P L1P . I 7 XE A 1 638 638 XE XE . J 8 HOH A 1 600 600 HOH HOH . J 8 HOH A 2 601 601 HOH HOH . J 8 HOH A 3 602 602 HOH HOH . J 8 HOH A 4 603 603 HOH HOH . J 8 HOH A 5 604 604 HOH HOH . J 8 HOH A 6 605 605 HOH HOH . J 8 HOH A 7 606 606 HOH HOH . J 8 HOH A 8 607 607 HOH HOH . J 8 HOH A 9 608 608 HOH HOH . J 8 HOH A 10 609 609 HOH HOH . J 8 HOH A 11 610 610 HOH HOH . J 8 HOH A 12 611 611 HOH HOH . J 8 HOH A 13 612 612 HOH HOH . J 8 HOH A 14 613 613 HOH HOH . J 8 HOH A 15 614 614 HOH HOH . J 8 HOH A 16 615 615 HOH HOH . J 8 HOH A 17 616 616 HOH HOH . J 8 HOH A 18 617 617 HOH HOH . J 8 HOH A 19 618 618 HOH HOH . J 8 HOH A 20 619 619 HOH HOH . J 8 HOH A 21 620 620 HOH HOH . J 8 HOH A 22 621 621 HOH HOH . J 8 HOH A 23 622 622 HOH HOH . J 8 HOH A 24 623 623 HOH HOH . J 8 HOH A 25 624 624 HOH HOH . J 8 HOH A 26 625 625 HOH HOH . J 8 HOH A 27 626 626 HOH HOH . J 8 HOH A 28 627 627 HOH HOH . J 8 HOH A 29 628 628 HOH HOH . J 8 HOH A 30 629 629 HOH HOH . J 8 HOH A 31 630 630 HOH HOH . J 8 HOH A 32 631 631 HOH HOH . J 8 HOH A 33 632 632 HOH HOH . J 8 HOH A 34 633 633 HOH HOH . J 8 HOH A 35 634 634 HOH HOH . J 8 HOH A 36 635 635 HOH HOH . J 8 HOH A 37 636 636 HOH HOH . J 8 HOH A 38 637 637 HOH HOH . J 8 HOH A 39 639 639 HOH HOH . J 8 HOH A 40 640 640 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 L2P . . . E 5 52.117 23.826 13.111 1 86.08 ? C1 L2P 270 A 1 HETATM 2 O O1 L2P . . . E 5 52.773 25.091 12.822 1 88.16 ? O1 L2P 270 A 1 HETATM 3 C C2 L2P . . . E 5 50.861 24.031 14.022 1 84.29 ? C2 L2P 270 A 1 HETATM 4 O O2 L2P . . . E 5 50.906 22.94 15.046 1 81.55 ? O2 L2P 270 A 1 HETATM 5 C C3 L2P . . . E 5 49.534 23.951 13.141 1 86.24 ? C3 L2P 270 A 1 HETATM 6 O O3 L2P . . . E 5 49.619 24.645 11.951 1 87.74 ? O3 L2P 270 A 1 HETATM 7 C C11 L2P . . . E 5 53.631 25.457 13.847 1 90.61 ? C11 L2P 270 A 1 HETATM 8 C C12 L2P . . . E 5 54.388 26.72 13.518 1 93.5 ? C12 L2P 270 A 1 HETATM 9 C C13 L2P . . . E 5 55.364 27.168 14.629 1 94.8 ? C13 L2P 270 A 1 HETATM 10 C C14 L2P . . . E 5 56.737 27.336 14.047 1 95.3 ? C14 L2P 270 A 1 HETATM 11 C C15 L2P . . . E 5 55.359 26.152 15.848 1 96.57 ? C15 L2P 270 A 1 HETATM 12 C C16 L2P . . . E 5 55.455 26.88 17.223 1 98.67 ? C16 L2P 270 A 1 HETATM 13 C C17 L2P . . . E 5 55.424 25.941 18.485 1 100.86 ? C17 L2P 270 A 1 HETATM 14 C C18 L2P . . . E 5 55.573 26.748 19.79 1 102.93 ? C18 L2P 270 A 1 HETATM 15 C C19 L2P . . . E 5 56.969 26.423 20.43 1 103.27 ? C19 L2P 270 A 1 HETATM 16 C C20 L2P . . . E 5 54.485 26.368 20.842 1 104.48 ? C20 L2P 270 A 1 HETATM 17 C C21 L2P . . . E 5 53.224 27.232 21.13 1 106.79 ? C21 L2P 270 A 1 HETATM 18 C C22 L2P . . . E 5 52.598 26.285 22.202 1 108.83 ? C22 L2P 270 A 1 HETATM 19 C C23 L2P . . . E 5 51.191 26.547 23.007 1 110.44 ? C23 L2P 270 A 1 HETATM 20 C C24 L2P . . . E 5 51.709 27.774 23.917 1 110.94 ? C24 L2P 270 A 1 HETATM 21 C C25 L2P . . . E 5 50.82 25.315 24.028 1 111.59 ? C25 L2P 270 A 1 HETATM 22 C C26 L2P . . . E 5 49.839 25.96 25.24 1 113.21 ? C26 L2P 270 A 1 HETATM 23 C C27 L2P . . . E 5 49.328 24.987 26.353 1 114.11 ? C27 L2P 270 A 1 HETATM 24 C C28 L2P . . . E 5 49.378 25.635 27.839 1 114.05 ? C28 L2P 270 A 1 HETATM 25 C C29 L2P . . . E 5 48.031 26.34 28.249 1 114.15 ? C29 L2P 270 A 1 HETATM 26 C C30 L2P . . . E 5 49.65 24.491 28.927 1 114.35 ? C30 L2P 270 A 1 HETATM 27 C C41 L2P . . . E 5 50.258 23.243 16.377 1 77.73 ? C41 L2P 270 A 1 HETATM 28 C C42 L2P . . . E 5 51.096 22.39 17.462 1 74.62 ? C42 L2P 270 A 1 HETATM 29 C C43 L2P . . . E 5 50.625 22.492 19.004 1 72.49 ? C43 L2P 270 A 1 HETATM 30 C C44 L2P . . . E 5 50.621 23.97 19.511 1 71.96 ? C44 L2P 270 A 1 HETATM 31 C C45 L2P . . . E 5 51.619 21.563 19.823 1 71.13 ? C45 L2P 270 A 1 HETATM 32 C C46 L2P . . . E 5 51.347 21.487 21.368 1 71.02 ? C46 L2P 270 A 1 HETATM 33 C C47 L2P . . . E 5 52.542 20.728 22.021 1 69.93 ? C47 L2P 270 A 1 HETATM 34 C C48 L2P . . . E 5 52.174 19.819 23.392 1 69.19 ? C48 L2P 270 A 1 HETATM 35 C C49 L2P . . . E 5 50.967 18.859 23.176 1 67.34 ? C49 L2P 270 A 1 HETATM 36 C C50 L2P . . . E 5 51.92 20.846 24.652 1 68.4 ? C50 L2P 270 A 1 HETATM 37 C C51 L2P . . . E 5 51.57 20.102 25.994 1 67.6 ? C51 L2P 270 A 1 HETATM 38 C C52 L2P . . . E 5 51.366 21.178 27.118 1 67.1 ? C52 L2P 270 A 1 HETATM 39 C C53 L2P . . . E 5 51.771 20.619 28.534 1 68.42 ? C53 L2P 270 A 1 HETATM 40 C C54 L2P . . . E 5 50.539 19.967 29.106 1 69.69 ? C54 L2P 270 A 1 HETATM 41 C C55 L2P . . . E 5 52.258 21.792 29.505 1 68.66 ? C55 L2P 270 A 1 HETATM 42 C C56 L2P . . . E 5 52.669 21.22 30.913 1 70.55 ? C56 L2P 270 A 1 HETATM 43 C C57 L2P . . . E 5 53.172 22.379 31.9 1 70.76 ? C57 L2P 270 A 1 HETATM 44 C C58 L2P . . . E 5 51.95 23.126 32.574 1 70.44 ? C58 L2P 270 A 1 HETATM 45 C C59 L2P . . . E 5 51.482 22.363 33.725 1 71.11 ? C59 L2P 270 A 1 HETATM 46 C C60 L2P . . . E 5 52.392 24.538 33.037 1 70.99 ? C60 L2P 270 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 46 #