data_3WQJ # _model_server_result.job_id NivDJ7gNVHlHRfYfBiBfBg _model_server_result.datetime_utc '2024-11-24 05:34:06' _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 3wqj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 3WQJ # _exptl.entry_id 3WQJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 885.179 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE" _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 3WQJ _cell.length_a 62.739 _cell.length_b 62.739 _cell.length_c 331.464 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WQJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 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_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 31.3695 54.333568 0 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -31.3695 54.333568 0 # _struct_asym.details ? _struct_asym.entity_id 6 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 227 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 221 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _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 1.456 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C46 H94 O11 P2 -2' _chem_comp.formula_weight 885.179 _chem_comp.id L3P _chem_comp.mon_nstd_flag . _chem_comp.name "2,3-DI-O-PHYTANLY-3-SN-GLYCERO-1-PHOSPHORYL-3'-SN-GLYCEROL-1'-PHOSPHATE" _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 C1 C2 L3P sing 401 n n C1 O1 L3P sing 402 n n C1 H12 L3P sing 403 n n C1 H11 L3P sing 404 n n C2 C3 L3P sing 405 n n C2 O2 L3P sing 406 n n C2 H2 L3P sing 407 n n C3 O3 L3P sing 408 n n C3 H32 L3P sing 409 n n C3 H31 L3P sing 410 n n C4 C5 L3P sing 411 n n C4 O4 L3P sing 412 n n C4 H42 L3P sing 413 n n C4 H41 L3P sing 414 n n C5 C6 L3P sing 415 n n C5 O5 L3P sing 416 n n C5 H5 L3P sing 417 n n C6 O6 L3P sing 418 n n C6 H62 L3P sing 419 n n C6 H61 L3P sing 420 n n O1 C11 L3P sing 421 n n O2 C41 L3P sing 422 n n O3 P1 L3P sing 423 n n O4 P1 L3P sing 424 n n O5 H5O L3P sing 425 n n O6 P2 L3P sing 426 n n O1P P1 L3P doub 427 n n O2P P1 L3P sing 428 n n O4P P2 L3P doub 429 n n O5P P2 L3P sing 430 n n O6P P2 L3P sing 431 n n O6P HOP6 L3P sing 432 n n C11 C12 L3P sing 433 n n C11 H112 L3P sing 434 n n C11 H111 L3P sing 435 n n C12 C13 L3P sing 436 n n C12 H122 L3P sing 437 n n C12 H121 L3P sing 438 n n C13 C14 L3P sing 439 n n C13 C15 L3P sing 440 n n C13 H13 L3P sing 441 n n C14 H143 L3P sing 442 n n C14 H142 L3P sing 443 n n C14 H141 L3P sing 444 n n C15 C16 L3P sing 445 n n C15 H152 L3P sing 446 n n C15 H151 L3P sing 447 n n C16 C17 L3P sing 448 n n C16 H162 L3P sing 449 n n C16 H161 L3P sing 450 n n C17 C18 L3P sing 451 n n C17 H172 L3P sing 452 n n C17 H171 L3P sing 453 n n C18 C19 L3P sing 454 n n C18 C20 L3P sing 455 n n C18 H18 L3P sing 456 n n C19 H193 L3P sing 457 n n C19 H192 L3P sing 458 n n C19 H191 L3P sing 459 n n C20 C21 L3P sing 460 n n C20 H202 L3P sing 461 n n C20 H201 L3P sing 462 n n C21 C22 L3P sing 463 n n C21 H212 L3P sing 464 n n C21 H211 L3P sing 465 n n C22 C23 L3P sing 466 n n C22 H222 L3P sing 467 n n C22 H221 L3P sing 468 n n C23 C24 L3P sing 469 n n C23 C25 L3P sing 470 n n C23 H23 L3P sing 471 n n C24 H243 L3P sing 472 n n C24 H242 L3P sing 473 n n C24 H241 L3P sing 474 n n C25 C26 L3P sing 475 n n C25 H252 L3P sing 476 n n C25 H251 L3P sing 477 n n C26 C27 L3P sing 478 n n C26 H262 L3P sing 479 n n C26 H261 L3P sing 480 n n C27 C28 L3P sing 481 n n C27 H272 L3P sing 482 n n C27 H271 L3P sing 483 n n C28 C29 L3P sing 484 n n C28 C30 L3P sing 485 n n C28 H28 L3P sing 486 n n C29 H293 L3P sing 487 n n C29 H292 L3P sing 488 n n C29 H291 L3P sing 489 n n C30 H303 L3P sing 490 n n C30 H302 L3P sing 491 n n C30 H301 L3P sing 492 n n C41 C42 L3P sing 493 n n C41 H412 L3P sing 494 n n C41 H411 L3P sing 495 n n C42 C43 L3P sing 496 n n C42 H422 L3P sing 497 n n C42 H421 L3P sing 498 n n C43 C44 L3P sing 499 n n C43 C45 L3P sing 500 n n C43 H43 L3P sing 501 n n C44 H443 L3P sing 502 n n C44 H442 L3P sing 503 n n C44 H441 L3P sing 504 n n C45 C46 L3P sing 505 n n C45 H452 L3P sing 506 n n C45 H451 L3P sing 507 n n C46 C47 L3P sing 508 n n C46 H462 L3P sing 509 n n C46 H461 L3P sing 510 n n C47 C48 L3P sing 511 n n C47 H472 L3P sing 512 n n C47 H471 L3P sing 513 n n C48 C49 L3P sing 514 n n C48 C50 L3P sing 515 n n C48 H48 L3P sing 516 n n C49 H493 L3P sing 517 n n C49 H492 L3P sing 518 n n C49 H491 L3P sing 519 n n C50 C51 L3P sing 520 n n C50 H502 L3P sing 521 n n C50 H501 L3P sing 522 n n C51 C52 L3P sing 523 n n C51 H512 L3P sing 524 n n C51 H511 L3P sing 525 n n C52 C53 L3P sing 526 n n C52 H522 L3P sing 527 n n C52 H521 L3P sing 528 n n C53 C54 L3P sing 529 n n C53 C55 L3P sing 530 n n C53 H53 L3P sing 531 n n C54 H543 L3P sing 532 n n C54 H542 L3P sing 533 n n C54 H541 L3P sing 534 n n C55 C56 L3P sing 535 n n C55 H552 L3P sing 536 n n C55 H551 L3P sing 537 n n C56 C57 L3P sing 538 n n C56 H562 L3P sing 539 n n C56 H561 L3P sing 540 n n C57 C58 L3P sing 541 n n C57 H572 L3P sing 542 n n C57 H571 L3P sing 543 n n C58 C59 L3P sing 544 n n C58 C60 L3P sing 545 n n C58 H58 L3P sing 546 n n C59 H593 L3P sing 547 n n C59 H592 L3P sing 548 n n C59 H591 L3P sing 549 n n C60 H603 L3P sing 550 n n C60 H602 L3P sing 551 n n C60 H601 L3P sing 552 n n # _atom_sites.entry_id 3WQJ _atom_sites.fract_transf_matrix[1][1] 0.015939 _atom_sites.fract_transf_matrix[1][2] 0.009202 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018405 _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] 0.003017 _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 B 2 RET A 1 301 260 RET RET . C 3 22B A 1 302 270 22B 22B . D 4 SO4 A 1 303 300 SO4 SO4 . E 5 L2P A 1 304 280 L2P L2P . F 6 L3P A 1 305 281 L3P L3P . G 7 L4P A 1 306 290 L4P L4P . H 7 L4P A 1 307 291 L4P L4P . I 8 SQL A 1 308 380 SQL SQU . J 9 HOH A 1 401 401 HOH HOH . J 9 HOH A 2 402 402 HOH HOH . J 9 HOH A 3 403 403 HOH HOH . J 9 HOH A 4 404 404 HOH HOH . J 9 HOH A 5 405 405 HOH HOH . J 9 HOH A 6 406 406 HOH HOH . J 9 HOH A 7 407 407 HOH HOH . J 9 HOH A 8 408 408 HOH HOH . J 9 HOH A 9 409 409 HOH HOH . J 9 HOH A 10 410 410 HOH HOH . J 9 HOH A 11 411 411 HOH HOH . J 9 HOH A 12 412 412 HOH HOH . J 9 HOH A 13 413 413 HOH HOH . J 9 HOH A 14 414 414 HOH HOH . J 9 HOH A 15 415 415 HOH HOH . J 9 HOH A 16 416 416 HOH HOH . J 9 HOH A 17 417 417 HOH HOH . J 9 HOH A 18 418 419 HOH HOH . J 9 HOH A 19 419 420 HOH HOH . J 9 HOH A 20 420 421 HOH HOH . J 9 HOH A 21 421 422 HOH HOH . J 9 HOH A 22 422 423 HOH HOH . J 9 HOH A 23 423 424 HOH HOH . J 9 HOH A 24 424 425 HOH HOH . J 9 HOH A 25 425 426 HOH HOH . J 9 HOH A 26 426 427 HOH HOH . J 9 HOH A 27 427 428 HOH HOH . J 9 HOH A 28 428 429 HOH HOH . J 9 HOH A 29 429 430 HOH HOH . J 9 HOH A 30 430 431 HOH HOH . J 9 HOH A 31 431 432 HOH HOH . J 9 HOH A 32 432 433 HOH HOH . J 9 HOH A 33 433 434 HOH HOH . J 9 HOH A 34 434 435 HOH HOH . J 9 HOH A 35 435 436 HOH HOH . J 9 HOH A 36 436 437 HOH HOH . J 9 HOH A 37 437 441 HOH HOH . J 9 HOH A 38 438 442 HOH HOH . J 9 HOH A 39 439 443 HOH HOH . J 9 HOH A 40 440 444 HOH HOH . J 9 HOH A 41 441 445 HOH HOH . J 9 HOH A 42 442 446 HOH HOH . J 9 HOH A 43 443 447 HOH HOH . J 9 HOH A 44 444 448 HOH HOH . J 9 HOH A 45 445 449 HOH HOH . J 9 HOH A 46 446 450 HOH HOH . J 9 HOH A 47 447 451 HOH HOH . J 9 HOH A 48 448 452 HOH HOH . J 9 HOH A 49 449 453 HOH HOH . J 9 HOH A 50 450 454 HOH HOH . J 9 HOH A 51 451 456 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 C11 L3P . . . F 6 29.05 18.39 46.299 1 73.07 ? C11 L3P 305 A 1 HETATM 2 C C12 L3P . . . F 6 27.845 18.8 45.478 1 73.5 ? C12 L3P 305 A 1 HETATM 3 C C13 L3P . . . F 6 27.885 18.336 44.016 1 74.78 ? C13 L3P 305 A 1 HETATM 4 C C14 L3P . . . F 6 27.871 16.812 43.893 1 75.03 ? C14 L3P 305 A 1 HETATM 5 C C15 L3P . . . F 6 29.045 18.957 43.231 1 75.77 ? C15 L3P 305 A 1 HETATM 6 C C16 L3P . . . F 6 28.551 19.84 42.083 1 76.49 ? C16 L3P 305 A 1 HETATM 7 C C17 L3P . . . F 6 28.686 19.128 40.733 1 76.88 ? C17 L3P 305 A 1 HETATM 8 C C18 L3P . . . F 6 28.172 19.927 39.526 1 77.08 ? C18 L3P 305 A 1 HETATM 9 C C19 L3P . . . F 6 26.893 20.713 39.826 1 76.46 ? C19 L3P 305 A 1 HETATM 10 C C20 L3P . . . F 6 27.97 18.968 38.348 1 76.81 ? C20 L3P 305 A 1 HETATM 11 C C21 L3P . . . F 6 28.705 19.399 37.08 1 77.34 ? C21 L3P 305 A 1 HETATM 12 C C22 L3P . . . F 6 27.861 19.141 35.829 1 77.72 ? C22 L3P 305 A 1 HETATM 13 C C23 L3P . . . F 6 28.28 19.97 34.611 1 77.88 ? C23 L3P 305 A 1 HETATM 14 C C24 L3P . . . F 6 28.103 21.468 34.866 1 78.6 ? C24 L3P 305 A 1 HETATM 15 C C25 L3P . . . F 6 27.47 19.514 33.396 1 77.33 ? C25 L3P 305 A 1 HETATM 16 C C26 L3P . . . F 6 27.906 20.177 32.092 1 76.41 ? C26 L3P 305 A 1 HETATM 17 C C27 L3P . . . F 6 28.53 19.17 31.131 1 76.04 ? C27 L3P 305 A 1 HETATM 18 C C28 L3P . . . F 6 28.619 19.729 29.713 1 75.64 ? C28 L3P 305 A 1 HETATM 19 C C29 L3P . . . F 6 29.976 20.366 29.449 1 76.31 ? C29 L3P 305 A 1 HETATM 20 C C30 L3P . . . F 6 28.312 18.67 28.659 1 75.54 ? C30 L3P 305 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 695 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #