data_5SYC
#
_model_server_result.job_id            CSHmLUFApkTeLV_ukFG-Cw 
_model_server_result.datetime_utc      '2025-07-08 04:12:38' 
_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          5syc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":502}' 
#
_entry.id    5SYC 
#
_exptl.entry_id    5SYC 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              548.663 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'Peloruside A' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? 52-meric 52 'representative helical assembly' 1 
? dimeric 2 'helical asymmetric unit' 2 
? dimeric 2 'helical asymmetric unit, std helical frame' 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F 1 (1-26) 
A,B,C,D,E,F 2 14 
A,B,C,D,E,F 3 H 
#
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]
H 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'helical symmetry operation' ? ? -0.971134 -0.238533 0 0.238533 -0.971134 0 0 0 1 746.8677 585.61908 -56.28 
3 'helical symmetry operation' ? ? -0.971134 -0.238533 0 0.238533 -0.971134 0 0 0 1 746.8677 585.61908 24.72 
4 'helical symmetry operation' ? ? -0.748956 -0.66262 0 0.66262 -0.748956 0 0 0 1 815.11261 367.18146 -46.9 
5 'helical symmetry operation' ? ? -0.748956 -0.66262 0 0.66262 -0.748956 0 0 0 1 815.11261 367.18146 34.1 
6 'helical symmetry operation' ? ? -0.355107 -0.934826 0 0.934826 -0.355107 0 0 0 1 773.99723 142.05507 -37.52 
7 'helical symmetry operation' ? ? -0.355107 -0.934826 0 0.934826 -0.355107 0 0 0 1 773.99723 142.05507 43.48 
8 'helical symmetry operation' ? ? 0.120137 -0.992757 0 0.992757 0.120137 0 0 0 1 632.94573 -38.15823 -28.14 
9 'helical symmetry operation' ? ? 0.120137 -0.992757 0 0.992757 0.120137 0 0 0 1 632.94573 -38.15823 52.86 
10 'helical symmetry operation' ? ? 0.567844 -0.823136 0 0.823136 0.567844 0 0 0 1 424.28891 -132.15128 -18.76 
11 'helical symmetry operation' ? ? 0.567844 -0.823136 0 0.823136 0.567844 0 0 0 1 424.28891 -132.15128 62.24 
12 'helical symmetry operation' ? ? 0.885394 -0.464842 0 0.464842 0.885394 0 0 0 1 195.85357 -118.37966 -9.38 
13 'helical symmetry operation' ? ? 0.885394 -0.464842 0 0.464842 0.885394 0 0 0 1 195.85357 -118.37966 71.62 
14 'helical symmetry operation' ? ? 1 0 0 0 1 0 0 0 1 0 0 81 
15 'helical symmetry operation' ? ? 0.885394 0.464842 0 -0.464842 0.885394 0 0 0 1 -118.37966 195.85357 9.38 
16 'helical symmetry operation' ? ? 0.885394 0.464842 0 -0.464842 0.885394 0 0 0 1 -118.37966 195.85357 90.38 
17 'helical symmetry operation' ? ? 0.567844 0.823136 0 -0.823136 0.567844 0 0 0 1 -132.15128 424.28891 18.76 
18 'helical symmetry operation' ? ? 0.567844 0.823136 0 -0.823136 0.567844 0 0 0 1 -132.15128 424.28891 99.76 
19 'helical symmetry operation' ? ? 0.120137 0.992757 0 -0.992757 0.120137 0 0 0 1 -38.15823 632.94573 28.14 
20 'helical symmetry operation' ? ? 0.120137 0.992757 0 -0.992757 0.120137 0 0 0 1 -38.15823 632.94573 109.14 
21 'helical symmetry operation' ? ? -0.355107 0.934826 0 -0.934826 -0.355107 0 0 0 1 142.05507 773.99723 37.52 
22 'helical symmetry operation' ? ? -0.355107 0.934826 0 -0.934826 -0.355107 0 0 0 1 142.05507 773.99723 118.52 
23 'helical symmetry operation' ? ? -0.748956 0.66262 0 -0.66262 -0.748956 0 0 0 1 367.18146 815.11261 46.9 
24 'helical symmetry operation' ? ? -0.748956 0.66262 0 -0.66262 -0.748956 0 0 0 1 367.18146 815.11261 127.9 
25 'helical symmetry operation' ? ? -0.971134 0.238533 0 -0.238533 -0.971134 0 0 0 1 585.61908 746.8677 56.28 
26 'helical symmetry operation' ? ? -0.971134 0.238533 0 -0.238533 -0.971134 0 0 0 1 585.61908 746.8677 137.28 
#
_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 
#
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
metalc ? metalc1 A OE2 GLU 71 A GLU 71 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? 
metalc ? metalc2 C O1G GTP . A GTP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? 
metalc ? metalc3 C O1B GTP . A GTP 501 1_555 D MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.888 ? 
#
_chem_comp.formula           'C27 H48 O11' 
_chem_comp.formula_weight    548.663 
_chem_comp.id                POU 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'Peloruside A' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     (1R,3R,4S,7S,9S,11S,13R,14R,15R)-4,11,13,14-tetrahydroxy-7-[(2Z,4R)-4-(hydroxymethyl)hex-2-en-2-yl]-3,9,15-trimethoxy-12,12-dimethyl-6,17-dioxabicyclo[11.3.1]heptadecan-5-one 
#
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
C17 O7 POU sing 353 n n 
O7 C7 POU sing 354 n n 
C7 C6 POU sing 355 n n 
C7 C8 POU sing 356 n n 
O2 C2 POU sing 357 n n 
C6 C5 POU sing 358 n n 
C5 C4 POU sing 359 n n 
C5 O9 POU sing 360 n n 
C2 C1 POU sing 361 n n 
C2 C3 POU sing 362 n n 
O24 C24 POU sing 363 n n 
O91 C9 POU sing 364 n n 
O1 C1 POU doub 365 n n 
C8 C9 POU sing 366 n n 
C8 O8 POU sing 367 n n 
C4 C3 POU sing 368 n n 
C1 O15 POU sing 369 n n 
C24 C23 POU sing 370 n n 
C9 O9 POU sing 371 n n 
C9 C10 POU sing 372 n n 
C3 O3 POU sing 373 n n 
O3 C16 POU sing 374 n n 
O15 C15 POU sing 375 n n 
C23 C26 POU sing 376 n n 
C23 C22 POU sing 377 n n 
C19 C10 POU sing 378 n n 
C10 C11 POU sing 379 n n 
C10 C18 POU sing 380 n n 
O13 C20 POU sing 381 n n 
O13 C13 POU sing 382 n n 
C26 C27 POU sing 383 n n 
C11 C12 POU sing 384 n n 
C11 O11 POU sing 385 n n 
C15 C21 POU sing 386 n n 
C15 C14 POU sing 387 n n 
C22 C21 POU doub 388 z n 
C12 C13 POU sing 389 n n 
C21 C25 POU sing 390 n n 
C13 C14 POU sing 391 n n 
C27 H1 POU sing 392 n n 
C27 H2 POU sing 393 n n 
C27 H3 POU sing 394 n n 
C20 H4 POU sing 395 n n 
C20 H5 POU sing 396 n n 
C20 H6 POU sing 397 n n 
C16 H7 POU sing 398 n n 
C16 H8 POU sing 399 n n 
C16 H9 POU sing 400 n n 
C17 H10 POU sing 401 n n 
C17 H11 POU sing 402 n n 
C17 H12 POU sing 403 n n 
C25 H13 POU sing 404 n n 
C25 H14 POU sing 405 n n 
C25 H15 POU sing 406 n n 
C18 H16 POU sing 407 n n 
C18 H17 POU sing 408 n n 
C18 H18 POU sing 409 n n 
C19 H19 POU sing 410 n n 
C19 H20 POU sing 411 n n 
C19 H21 POU sing 412 n n 
C22 H22 POU sing 413 n n 
C26 H23 POU sing 414 n n 
C26 H24 POU sing 415 n n 
C24 H25 POU sing 416 n n 
C24 H26 POU sing 417 n n 
C12 H27 POU sing 418 n n 
C12 H28 POU sing 419 n n 
C14 H29 POU sing 420 n n 
C14 H30 POU sing 421 n n 
C4 H31 POU sing 422 n n 
C4 H32 POU sing 423 n n 
C6 H33 POU sing 424 n n 
C6 H34 POU sing 425 n n 
O24 H35 POU sing 426 n n 
O11 H36 POU sing 427 n n 
O2 H37 POU sing 428 n n 
O8 H38 POU sing 429 n n 
O91 H39 POU sing 430 n n 
C23 H40 POU sing 431 n n 
C11 H41 POU sing 432 n n 
C13 H42 POU sing 433 n n 
C5 H43 POU sing 434 n n 
C2 H44 POU sing 435 n n 
C8 H45 POU sing 436 n n 
C15 H46 POU sing 437 n n 
C3 H47 POU sing 438 n n 
C7 H48 POU sing 439 n n 
#
_atom_sites.entry_id                     5SYC 
_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
C 3 GTP A 1 501 501 GTP GTP . 
D 4 MG A 1 502 502 MG MG . 
E 5 GDP B 1 501 501 GDP GDP . 
F 6 POU B 1 502 502 POU POU . 
#
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 POU . . . F 6 343.408 455.078 334.863 1 20 ? C27 POU 502 B 1 
HETATM 2 C C20 POU . . . F 6 345.956 450.944 334.634 1 20 ? C20 POU 502 B 1 
HETATM 3 C C16 POU . . . F 6 349.742 455.257 329.005 1 20 ? C16 POU 502 B 1 
HETATM 4 C C17 POU . . . F 6 351.944 446.642 328.377 1 20 ? C17 POU 502 B 1 
HETATM 5 C C25 POU . . . F 6 347.398 456.264 331.936 1 20 ? C25 POU 502 B 1 
HETATM 6 C C18 POU . . . F 6 352 450.877 332.565 1 20 ? C18 POU 502 B 1 
HETATM 7 C C19 POU . . . F 6 351.258 448.519 332.904 1 20 ? C19 POU 502 B 1 
HETATM 8 C C22 POU . . . F 6 344.81 455.913 332.246 1 20 ? C22 POU 502 B 1 
HETATM 9 C C26 POU . . . F 6 342.668 455.278 333.529 1 20 ? C26 POU 502 B 1 
HETATM 10 C C24 POU . . . F 6 342.727 455.202 331.091 1 20 ? C24 POU 502 B 1 
HETATM 11 C C12 POU . . . F 6 349.067 451.845 332.711 1 20 ? C12 POU 502 B 1 
HETATM 12 C C14 POU . . . F 6 347.19 453.441 333.667 1 20 ? C14 POU 502 B 1 
HETATM 13 C C4 POU . . . F 6 349.825 452.525 328.329 1 20 ? C4 POU 502 B 1 
HETATM 14 C C6 POU . . . F 6 351.061 450.262 327.95 1 20 ? C6 POU 502 B 1 
HETATM 15 C C21 POU . . . F 6 346.239 455.315 332.21 1 20 ? C21 POU 502 B 1 
HETATM 16 O O1 POU . . . F 6 345.459 453.138 329.677 1 20 ? O1 POU 502 B 1 
HETATM 17 O O24 POU . . . F 6 341.65 454.271 331.151 1 20 ? O24 POU 502 B 1 
HETATM 18 O O11 POU . . . F 6 349.918 450.526 334.519 1 20 ? O11 POU 502 B 1 
HETATM 19 O O2 POU . . . F 6 347.09 452.434 327.778 1 20 ? O2 POU 502 B 1 
HETATM 20 O O8 POU . . . F 6 352.878 449.502 330.077 1 20 ? O8 POU 502 B 1 
HETATM 21 O O91 POU . . . F 6 349.33 449.016 330.711 1 20 ? O91 POU 502 B 1 
HETATM 22 O O13 POU . . . F 6 346.857 450.996 333.536 1 20 ? O13 POU 502 B 1 
HETATM 23 O O3 POU . . . F 6 348.561 454.483 328.852 1 20 ? O3 POU 502 B 1 
HETATM 24 O O7 POU . . . F 6 351.955 447.943 327.778 1 20 ? O7 POU 502 B 1 
HETATM 25 O O15 POU . . . F 6 347.203 453.23 331.162 1 20 ? O15 POU 502 B 1 
HETATM 26 O O9 POU . . . F 6 350.317 450.999 330.209 1 20 ? O9 POU 502 B 1 
HETATM 27 C C1 POU . . . F 6 346.62 452.933 329.978 1 20 ? C1 POU 502 B 1 
HETATM 28 C C23 POU . . . F 6 343.586 454.991 332.326 1 20 ? C23 POU 502 B 1 
HETATM 29 C C11 POU . . . F 6 349.622 450.484 333.078 1 20 ? C11 POU 502 B 1 
HETATM 30 C C13 POU . . . F 6 347.883 452.03 333.682 1 20 ? C13 POU 502 B 1 
HETATM 31 C C5 POU . . . F 6 350.044 451.048 328.779 1 20 ? C5 POU 502 B 1 
HETATM 32 C C2 POU . . . F 6 347.551 452.368 329.137 1 20 ? C2 POU 502 B 1 
HETATM 33 C C8 POU . . . F 6 351.582 448.903 330.024 1 20 ? C8 POU 502 B 1 
HETATM 34 C C15 POU . . . F 6 346.572 453.826 332.286 1 20 ? C15 POU 502 B 1 
HETATM 35 C C3 POU . . . F 6 348.811 453.136 329.244 1 20 ? C3 POU 502 B 1 
HETATM 36 C C7 POU . . . F 6 351.134 448.841 328.544 1 20 ? C7 POU 502 B 1 
HETATM 37 C C10 POU . . . F 6 350.875 449.874 332.343 1 20 ? C10 POU 502 B 1 
HETATM 38 C C9 POU . . . F 6 350.593 449.711 330.805 1 20 ? C9 POU 502 B 1 
#
_model_server_stats.io_time_ms              59 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           38 
#