data_8PJK
#
_model_server_result.job_id            RhfZRcijgyAZfy8xRa83vA 
_model_server_result.datetime_utc      '2024-10-11 00:28:25' 
_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          8pjk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":504}' 
#
_entry.id    8PJK 
#
_exptl.entry_id    8PJK 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              953.081 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-1-(heptadecanoyloxy)-3-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,G,H,I,J 
_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    ? 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      7 
_struct_asym.id                             H 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_struct_conn.conn_type_id                   disulf 
_struct_conn.details                        ? 
_struct_conn.id                             disulf1 
_struct_conn.ptnr1_label_asym_id            D 
_struct_conn.ptnr1_label_atom_id            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             153 
_struct_conn.ptnr1_auth_asym_id             R 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              109 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            D 
_struct_conn.ptnr2_label_atom_id            SG 
_struct_conn.ptnr2_label_comp_id            CYS 
_struct_conn.ptnr2_label_seq_id             231 
_struct_conn.ptnr2_auth_asym_id             R 
_struct_conn.ptnr2_auth_comp_id             CYS 
_struct_conn.ptnr2_auth_seq_id              187 
_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                2.03 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C46 H82 O16 P2' 
_chem_comp.formula_weight    953.081 
_chem_comp.id                T7M 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-1-(heptadecanoyloxy)-3-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Phosphatidylinositol-4-phosphate 
#
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
C6 C1 T7M sing 367 n n 
C1 C2 T7M sing 368 n n 
C1 O1 T7M sing 369 n n 
C1 H1 T7M sing 370 n n 
O1 P1 T7M sing 371 n n 
O13 P1 T7M sing 372 n n 
O11 P1 T7M doub 373 n n 
P1 O12 T7M sing 374 n n 
C3 C2 T7M sing 375 n n 
C2 O2 T7M sing 376 n n 
C2 H2 T7M sing 377 n n 
O2 HO2 T7M sing 378 n n 
C4 C3 T7M sing 379 n n 
C3 O3 T7M sing 380 n n 
C3 H3 T7M sing 381 n n 
O3 HO3 T7M sing 382 n n 
O4 C4 T7M sing 383 n n 
C5 C4 T7M sing 384 n n 
C4 H4 T7M sing 385 n n 
P4 O4 T7M sing 386 n n 
O42 P4 T7M doub 387 n n 
O43 P4 T7M sing 388 n n 
P4 O41 T7M sing 389 n n 
O5 C5 T7M sing 390 n n 
C5 C6 T7M sing 391 n n 
C5 H5 T7M sing 392 n n 
O5 HO5 T7M sing 393 n n 
C6 O6 T7M sing 394 n n 
C6 H6 T7M sing 395 n n 
O6 HO6 T7M sing 396 n n 
C8 C7 T7M sing 397 n n 
C7 O13 T7M sing 398 n n 
C7 H7 T7M sing 399 n n 
C7 H7A T7M sing 400 n n 
O16 C8 T7M sing 401 n n 
C8 C9 T7M sing 402 n n 
C8 H8 T7M sing 403 n n 
O18 C9 T7M sing 404 n n 
C9 H9 T7M sing 405 n n 
C9 H9A T7M sing 406 n n 
O16 C10 T7M sing 407 n n 
C12 C10 T7M sing 408 n n 
C10 O17 T7M doub 409 n n 
O18 C11 T7M sing 410 n n 
C11 O19 T7M doub 411 n n 
C11 C31 T7M sing 412 n n 
C12 C13 T7M sing 413 n n 
C12 H12 T7M sing 414 n n 
C12 H12A T7M sing 415 n n 
O12 HO12 T7M sing 416 n n 
C13 C14 T7M sing 417 n n 
C13 H13 T7M sing 418 n n 
C13 H13A T7M sing 419 n n 
C15 C14 T7M sing 420 n n 
C14 H14 T7M sing 421 n n 
C14 H14A T7M sing 422 n n 
C15 C16 T7M doub 423 z n 
C15 H15 T7M sing 424 n n 
C16 C17 T7M sing 425 n n 
C16 H16 T7M sing 426 n n 
C18 C17 T7M sing 427 n n 
C17 H17 T7M sing 428 n n 
C17 H17A T7M sing 429 n n 
C18 C19 T7M doub 430 z n 
C18 H18 T7M sing 431 n n 
C19 C20 T7M sing 432 n n 
C19 H19 T7M sing 433 n n 
C20 C21 T7M sing 434 n n 
C20 H20 T7M sing 435 n n 
C20 H20A T7M sing 436 n n 
C21 C22 T7M doub 437 z n 
C21 H21 T7M sing 438 n n 
C22 C23 T7M sing 439 n n 
C22 H22 T7M sing 440 n n 
C23 C24 T7M sing 441 n n 
C23 H23 T7M sing 442 n n 
C23 H23A T7M sing 443 n n 
C24 C25 T7M doub 444 z n 
C24 H24 T7M sing 445 n n 
C26 C25 T7M sing 446 n n 
C25 H25 T7M sing 447 n n 
C26 C27 T7M sing 448 n n 
C26 H26 T7M sing 449 n n 
C26 H26A T7M sing 450 n n 
C27 C28 T7M sing 451 n n 
C27 H27 T7M sing 452 n n 
C27 H27A T7M sing 453 n n 
C28 C29 T7M sing 454 n n 
C28 H28 T7M sing 455 n n 
C28 H28A T7M sing 456 n n 
C29 C30 T7M sing 457 n n 
C29 H29 T7M sing 458 n n 
C29 H29A T7M sing 459 n n 
C30 H30 T7M sing 460 n n 
C30 H30A T7M sing 461 n n 
C30 H30B T7M sing 462 n n 
C31 C32 T7M sing 463 n n 
C31 H31 T7M sing 464 n n 
C31 H31A T7M sing 465 n n 
C32 C33 T7M sing 466 n n 
C32 H32 T7M sing 467 n n 
C32 H32A T7M sing 468 n n 
C33 C34 T7M sing 469 n n 
C33 H33 T7M sing 470 n n 
C33 H33A T7M sing 471 n n 
C34 C35 T7M sing 472 n n 
C34 H34 T7M sing 473 n n 
C34 H34A T7M sing 474 n n 
C35 C36 T7M sing 475 n n 
C35 H35 T7M sing 476 n n 
C35 H35A T7M sing 477 n n 
C37 C36 T7M sing 478 n n 
C36 H36 T7M sing 479 n n 
C36 H36A T7M sing 480 n n 
C37 C38 T7M sing 481 n n 
C37 H37 T7M sing 482 n n 
C37 H37A T7M sing 483 n n 
C39 C38 T7M sing 484 n n 
C38 H38 T7M sing 485 n n 
C38 H38A T7M sing 486 n n 
C40 C39 T7M sing 487 n n 
C39 H39 T7M sing 488 n n 
C39 H39A T7M sing 489 n n 
C41 C40 T7M sing 490 n n 
C40 H40 T7M sing 491 n n 
C40 H40A T7M sing 492 n n 
C42 C41 T7M sing 493 n n 
C41 H41 T7M sing 494 n n 
C41 H41A T7M sing 495 n n 
O41 HO41 T7M sing 496 n n 
C43 C42 T7M sing 497 n n 
C42 H42 T7M sing 498 n n 
C42 H42A T7M sing 499 n n 
C43 C44 T7M sing 500 n n 
C43 H43 T7M sing 501 n n 
C43 H43A T7M sing 502 n n 
O43 HO43 T7M sing 503 n n 
C44 C45 T7M sing 504 n n 
C44 H44 T7M sing 505 n n 
C44 H44A T7M sing 506 n n 
C45 C46 T7M sing 507 n n 
C45 H45 T7M sing 508 n n 
C45 H45A T7M sing 509 n n 
C46 H46 T7M sing 510 n n 
C46 H46A T7M sing 511 n n 
C46 H46B T7M sing 512 n n 
#
_atom_sites.entry_id                     8PJK 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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 5 CLR R 1 501 501 CLR CLR . 
F 5 CLR R 1 502 502 CLR CLR . 
G 6 ZL9 R 1 503 504 ZL9 ZL9 . 
H 7 T7M R 1 504 505 T7M T7M . 
I 8 HOH A 1 401 608 HOH HOH . 
I 8 HOH A 2 402 402 HOH HOH . 
J 8 HOH R 1 601 606 HOH HOH . 
J 8 HOH R 2 602 607 HOH HOH . 
J 8 HOH R 3 603 604 HOH HOH . 
J 8 HOH R 4 604 603 HOH HOH . 
J 8 HOH R 5 605 618 HOH HOH . 
J 8 HOH R 6 606 623 HOH HOH . 
J 8 HOH R 7 607 602 HOH HOH . 
J 8 HOH R 8 608 614 HOH HOH . 
J 8 HOH R 9 609 601 HOH HOH . 
J 8 HOH R 10 610 605 HOH HOH . 
J 8 HOH R 11 611 609 HOH HOH . 
J 8 HOH R 12 612 611 HOH HOH . 
J 8 HOH R 13 613 610 HOH HOH . 
J 8 HOH R 14 614 613 HOH HOH . 
J 8 HOH R 15 615 612 HOH HOH . 
J 8 HOH R 16 616 616 HOH HOH . 
J 8 HOH R 17 617 615 HOH HOH . 
J 8 HOH R 18 618 617 HOH HOH . 
J 8 HOH R 19 619 620 HOH HOH . 
J 8 HOH R 20 620 621 HOH HOH . 
J 8 HOH R 21 621 630 HOH HOH . 
J 8 HOH R 22 622 625 HOH HOH . 
J 8 HOH R 23 623 401 HOH HOH . 
J 8 HOH R 24 624 628 HOH HOH . 
J 8 HOH R 25 625 619 HOH HOH . 
J 8 HOH R 26 626 627 HOH HOH . 
J 8 HOH R 27 627 624 HOH HOH . 
J 8 HOH R 28 628 622 HOH HOH . 
J 8 HOH R 29 629 626 HOH HOH . 
J 8 HOH R 30 630 631 HOH HOH . 
J 8 HOH R 31 631 632 HOH HOH . 
J 8 HOH R 32 632 629 HOH HOH . 
J 8 HOH R 33 633 633 HOH HOH . 
J 8 HOH R 34 634 403 HOH HOH . 
J 8 HOH R 35 635 634 HOH HOH . 
J 8 HOH R 36 636 635 HOH HOH . 
J 8 HOH R 37 637 636 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 T7M . . . H 7 176.499 177.561 168.988 1 74.46 ? C1 T7M 504 R 1 
HETATM 2 O O1 T7M . . . H 7 177.482 178.594 169.208 1 79.63 ? O1 T7M 504 R 1 
HETATM 3 P P1 T7M . . . H 7 179.041 178.159 169.037 1 91.52 ? P1 T7M 504 R 1 
HETATM 4 C C2 T7M . . . H 7 175.534 177.54 170.165 1 75.19 ? C2 T7M 504 R 1 
HETATM 5 O O2 T7M . . . H 7 176.06 176.74 171.219 1 78.76 ? O2 T7M 504 R 1 
HETATM 6 C C3 T7M . . . H 7 174.183 176.997 169.719 1 75.91 ? C3 T7M 504 R 1 
HETATM 7 O O3 T7M . . . H 7 173.346 176.78 170.851 1 76.27 ? O3 T7M 504 R 1 
HETATM 8 C C4 T7M . . . H 7 173.519 177.966 168.752 1 74.53 ? C4 T7M 504 R 1 
HETATM 9 O O4 T7M . . . H 7 172.685 177.212 167.848 1 78.73 ? O4 T7M 504 R 1 
HETATM 10 P P4 T7M . . . H 7 171.873 178.085 166.743 1 87.54 ? P4 T7M 504 R 1 
HETATM 11 C C5 T7M . . . H 7 174.554 178.724 167.931 1 76.35 ? C5 T7M 504 R 1 
HETATM 12 O O5 T7M . . . H 7 174.939 179.931 168.583 1 78.78 ? O5 T7M 504 R 1 
HETATM 13 C C6 T7M . . . H 7 175.768 177.84 167.681 1 76.97 ? C6 T7M 504 R 1 
HETATM 14 O O6 T7M . . . H 7 176.637 178.469 166.744 1 77.15 ? O6 T7M 504 R 1 
HETATM 15 C C7 T7M . . . H 7 179.209 176.726 166.788 1 77.91 ? C7 T7M 504 R 1 
HETATM 16 C C8 T7M . . . H 7 180.654 176.289 166.799 1 78.9 ? C8 T7M 504 R 1 
HETATM 17 C C9 T7M . . . H 7 181.558 177.369 166.263 1 78.16 ? C9 T7M 504 R 1 
HETATM 18 C C10 T7M . . . H 7 181.258 174.732 168.521 1 78.27 ? C10 T7M 504 R 1 
HETATM 19 C C11 T7M . . . H 7 183.483 176.577 165.125 1 80.66 ? C11 T7M 504 R 1 
HETATM 20 O O11 T7M . . . H 7 179.195 176.828 169.66 1 75.89 ? O11 T7M 504 R 1 
HETATM 21 C C12 T7M . . . H 7 181.051 173.811 167.355 1 73.21 ? C12 T7M 504 R 1 
HETATM 22 O O12 T7M . . . H 7 179.961 179.253 169.427 1 80.05 ? O12 T7M 504 R 1 
HETATM 23 O O13 T7M . . . H 7 179.065 178.004 167.446 1 78.93 ? O13 T7M 504 R 1 
HETATM 24 O O16 T7M . . . H 7 181.064 176.013 168.173 1 77.44 ? O16 T7M 504 R 1 
HETATM 25 O O17 T7M . . . H 7 181.556 174.379 169.631 1 82.09 ? O17 T7M 504 R 1 
HETATM 26 O O18 T7M . . . H 7 182.917 176.876 166.296 1 81.75 ? O18 T7M 504 R 1 
HETATM 27 O O19 T7M . . . H 7 184.601 176.149 165.015 1 80.08 ? O19 T7M 504 R 1 
HETATM 28 C C31 T7M . . . H 7 182.55 176.839 163.978 1 76.95 ? C31 T7M 504 R 1 
HETATM 29 O O41 T7M . . . H 7 171.708 179.468 167.34 1 72.57 ? O41 T7M 504 R 1 
HETATM 30 O O42 T7M . . . H 7 170.559 177.362 166.561 1 83.47 ? O42 T7M 504 R 1 
HETATM 31 O O43 T7M . . . H 7 172.728 178.086 165.492 1 74.97 ? O43 T7M 504 R 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           25 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#