data_8F2K
#
_model_server_result.job_id            IVfYXSsUPS5Sqi6YzNBdQA 
_model_server_result.datetime_utc      '2024-11-30 11:54:02' 
_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          8f2k 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"S","auth_seq_id":503}' 
#
_entry.id    8F2K 
#
_exptl.entry_id    8F2K 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              589.76 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'Cruentaren A' 
_entity.pdbx_number_of_molecules    2 
_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            8F2K 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8F2K 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    heptameric 
_pdbx_struct_assembly.oligomeric_count      7 
_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,K,L,M,N,O,P,Q,R,S 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 6 P N N 
? 6 S N 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 OG1 THR 153 A THR 178 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? 
metalc ? metalc2 H O1G ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? 
metalc ? metalc3 H O2B ATP . A ATP 600 1_555 I MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc4 B OG1 THR 153 B THR 178 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc5 J O2G ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? 
metalc ? metalc6 J O1B ATP . B ATP 600 1_555 K MG MG . B MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? 
metalc ? metalc7 C OG1 THR 153 C THR 178 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
metalc ? metalc8 L O3G ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? 
metalc ? metalc9 L O1B ATP . C ATP 600 1_555 M MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
metalc ? metalc10 E OG1 THR 157 E THR 164 1_555 O MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
metalc ? metalc11 N O1G ATP . E ATP 501 1_555 O MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? 
metalc ? metalc12 N O2B ATP . E ATP 501 1_555 O MG MG . E MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
metalc ? metalc13 F OG1 THR 157 F THR 164 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? 
metalc ? metalc14 Q O2G ATP . F ATP 501 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
metalc ? metalc15 Q O2B ATP . F ATP 501 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? 
#
_chem_comp.formula           'C33 H51 N O8' 
_chem_comp.formula_weight    589.76 
_chem_comp.id                XBC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'Cruentaren A' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     (2R,3S)-N-{(2Z,5R,6R,7S)-7-[(3S,5Z,8S,9R)-9,14-dihydroxy-12-methoxy-8-methyl-1-oxo-3,4,7,8,9,10-hexahydro-1H-2-benzoxacyclododecin-3-yl]-6-hydroxy-5-methyloct-2-en-1-yl}-3-hydroxy-2-methylhexanamide 
#
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
O27 C19 XBC doub 423 n n 
C25 C24 XBC sing 424 n n 
C24 C23 XBC sing 425 n n 
C19 N18 XBC sing 426 n n 
C19 C20 XBC sing 427 n n 
N18 C17 XBC sing 428 n n 
C21 C23 XBC sing 429 n n 
C21 C20 XBC sing 430 n n 
C21 O22 XBC sing 431 n n 
C20 C26 XBC sing 432 n n 
C16 C17 XBC sing 433 n n 
C16 C15 XBC doub 434 z n 
C15 C14 XBC sing 435 n n 
C14 C12 XBC sing 436 n n 
C13 C12 XBC sing 437 n n 
C12 C11 XBC sing 438 n n 
O28 C11 XBC sing 439 n n 
C11 C10 XBC sing 440 n n 
C10 C09 XBC sing 441 n n 
C10 C29 XBC sing 442 n n 
O34 C33 XBC sing 443 n n 
C09 C08 XBC sing 444 n n 
C09 O30 XBC sing 445 n n 
O42 C31 XBC doub 446 n n 
C08 C07 XBC sing 447 n n 
C31 O30 XBC sing 448 n n 
C31 C32 XBC sing 449 n n 
C07 C06 XBC doub 450 z n 
C33 C32 XBC doub 451 n y 
C33 C35 XBC sing 452 n y 
C32 C40 XBC sing 453 n y 
C35 C36 XBC doub 454 n y 
C06 C05 XBC sing 455 n n 
C40 C41 XBC sing 456 n n 
C40 C39 XBC doub 457 n y 
C36 C39 XBC sing 458 n y 
C36 O37 XBC sing 459 n n 
C38 O37 XBC sing 460 n n 
C05 C03 XBC sing 461 n n 
C41 C02 XBC sing 462 n n 
C02 C03 XBC sing 463 n n 
C02 O01 XBC sing 464 n n 
C03 C04 XBC sing 465 n n 
C10 H101 XBC sing 466 n n 
C13 H131 XBC sing 467 n n 
C13 H132 XBC sing 468 n n 
C13 H133 XBC sing 469 n n 
C15 H151 XBC sing 470 n n 
C17 H171 XBC sing 471 n n 
C17 H172 XBC sing 472 n n 
C20 H201 XBC sing 473 n n 
C21 H211 XBC sing 474 n n 
C24 H241 XBC sing 475 n n 
C24 H242 XBC sing 476 n n 
C26 H262 XBC sing 477 n n 
C26 H261 XBC sing 478 n n 
C26 H263 XBC sing 479 n n 
C02 H021 XBC sing 480 n n 
C03 H031 XBC sing 481 n n 
C04 H043 XBC sing 482 n n 
C04 H041 XBC sing 483 n n 
C04 H042 XBC sing 484 n n 
C05 H051 XBC sing 485 n n 
C05 H052 XBC sing 486 n n 
C06 H061 XBC sing 487 n n 
C07 H071 XBC sing 488 n n 
C08 H082 XBC sing 489 n n 
C08 H081 XBC sing 490 n n 
C09 H091 XBC sing 491 n n 
C11 H111 XBC sing 492 n n 
C12 H121 XBC sing 493 n n 
C14 H141 XBC sing 494 n n 
C14 H142 XBC sing 495 n n 
C16 H161 XBC sing 496 n n 
C23 H232 XBC sing 497 n n 
C23 H231 XBC sing 498 n n 
C25 H252 XBC sing 499 n n 
C25 H251 XBC sing 500 n n 
C25 H253 XBC sing 501 n n 
C29 H291 XBC sing 502 n n 
C29 H293 XBC sing 503 n n 
C29 H292 XBC sing 504 n n 
C35 H351 XBC sing 505 n n 
C38 H383 XBC sing 506 n n 
C38 H381 XBC sing 507 n n 
C38 H382 XBC sing 508 n n 
C39 H391 XBC sing 509 n n 
C41 H411 XBC sing 510 n n 
C41 H412 XBC sing 511 n n 
N18 H181 XBC sing 512 n n 
O01 H011 XBC sing 513 n n 
O22 H221 XBC sing 514 n n 
O28 H281 XBC sing 515 n n 
O34 H341 XBC sing 516 n n 
#
_atom_sites.entry_id                     8F2K 
_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
H 4 ATP A 1 600 600 ATP ATP . 
I 5 MG A 1 601 601 MG MG . 
J 4 ATP B 1 600 600 ATP ATP . 
K 5 MG B 1 601 601 MG MG . 
L 4 ATP C 1 600 600 ATP ATP . 
M 5 MG C 1 601 601 MG MG . 
N 4 ATP E 1 501 600 ATP ATP . 
O 5 MG E 1 502 601 MG MG . 
P 6 XBC E 1 503 1 XBC LIG . 
Q 4 ATP F 1 501 600 ATP ATP . 
R 5 MG F 1 502 601 MG MG . 
S 6 XBC F 1 503 1 XBC LIG . 
#
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 C10 XBC . . . S 6 137.848 167.798 143.503 1 68.86 ? C10 XBC 503 F 1 
HETATM 2 C C13 XBC . . . S 6 136.813 170.753 141.248 1 68.47 ? C13 XBC 503 F 1 
HETATM 3 C C15 XBC . . . S 6 138.132 169.309 139.197 1 68.77 ? C15 XBC 503 F 1 
HETATM 4 C C17 XBC . . . S 6 140.306 167.947 138.32 1 66.35 ? C17 XBC 503 F 1 
HETATM 5 C C20 XBC . . . S 6 143.376 167.412 137.665 1 72.84 ? C20 XBC 503 F 1 
HETATM 6 C C21 XBC . . . S 6 144.339 166.481 136.925 1 71.74 ? C21 XBC 503 F 1 
HETATM 7 C C24 XBC . . . S 6 144.429 164.208 135.681 1 72.92 ? C24 XBC 503 F 1 
HETATM 8 C C26 XBC . . . S 6 144.144 168.614 138.213 1 67.28 ? C26 XBC 503 F 1 
HETATM 9 C C02 XBC . . . S 6 139.639 169.42 148.428 1 67.83 ? C02 XBC 503 F 1 
HETATM 10 C C03 XBC . . . S 6 140.373 168.131 148.791 1 66.72 ? C03 XBC 503 F 1 
HETATM 11 C C04 XBC . . . S 6 139.642 167.389 149.915 1 75 ? C04 XBC 503 F 1 
HETATM 12 C C05 XBC . . . S 6 140.465 167.218 147.557 1 69.42 ? C05 XBC 503 F 1 
HETATM 13 C C06 XBC . . . S 6 141.482 167.818 146.546 1 68.58 ? C06 XBC 503 F 1 
HETATM 14 C C07 XBC . . . S 6 141.321 167.842 145.215 1 68.73 ? C07 XBC 503 F 1 
HETATM 15 C C08 XBC . . . S 6 140.092 167.26 144.453 1 67.68 ? C08 XBC 503 F 1 
HETATM 16 C C09 XBC . . . S 6 139.066 168.384 144.215 1 70.26 ? C09 XBC 503 F 1 
HETATM 17 C C11 XBC . . . S 6 136.992 168.925 142.888 1 71.59 ? C11 XBC 503 F 1 
HETATM 18 C C12 XBC . . . S 6 137.673 169.561 141.672 1 72.55 ? C12 XBC 503 F 1 
HETATM 19 C C14 XBC . . . S 6 137.798 168.548 140.512 1 68.13 ? C14 XBC 503 F 1 
HETATM 20 C C16 XBC . . . S 6 139.168 169.007 138.379 1 74.73 ? C16 XBC 503 F 1 
HETATM 21 C C19 XBC . . . S 6 142.329 167.88 136.649 1 75.64 ? C19 XBC 503 F 1 
HETATM 22 C C23 XBC . . . S 6 143.54 165.327 136.279 1 69.74 ? C23 XBC 503 F 1 
HETATM 23 C C25 XBC . . . S 6 143.579 163.187 134.894 1 73.71 ? C25 XBC 503 F 1 
HETATM 24 C C29 XBC . . . S 6 136.992 167.026 144.504 1 68.72 ? C29 XBC 503 F 1 
HETATM 25 C C31 XBC . . . S 6 138.436 170.352 145.447 1 70.55 ? C31 XBC 503 F 1 
HETATM 26 C C32 XBC . . . S 6 137.557 171.034 146.539 1 65.24 ? C32 XBC 503 F 1 
HETATM 27 C C33 XBC . . . S 6 136.908 172.218 146.193 1 66.37 ? C33 XBC 503 F 1 
HETATM 28 C C35 XBC . . . S 6 136.104 172.886 147.121 1 71.16 ? C35 XBC 503 F 1 
HETATM 29 C C36 XBC . . . S 6 135.956 172.371 148.41 1 68.98 ? C36 XBC 503 F 1 
HETATM 30 C C38 XBC . . . S 6 133.811 173.23 148.931 1 72.29 ? C38 XBC 503 F 1 
HETATM 31 C C39 XBC . . . S 6 136.604 171.186 148.765 1 65.2 ? C39 XBC 503 F 1 
HETATM 32 C C40 XBC . . . S 6 137.413 170.517 147.84 1 67.28 ? C40 XBC 503 F 1 
HETATM 33 C C41 XBC . . . S 6 138.115 169.211 148.287 1 68.24 ? C41 XBC 503 F 1 
HETATM 34 N N18 XBC . . . S 6 140.906 168.101 136.969 1 73.17 ? N18 XBC 503 F 1 
HETATM 35 O O01 XBC . . . S 6 139.866 170.359 149.435 1 72.07 ? O01 XBC 503 F 1 
HETATM 36 O O22 XBC . . . S 6 145.28 165.965 137.814 1 78.68 ? O22 XBC 503 F 1 
HETATM 37 O O27 XBC . . . S 6 142.678 168.045 135.526 1 76.23 ? O27 XBC 503 F 1 
HETATM 38 O O28 XBC . . . S 6 135.761 168.411 142.49 1 68.89 ? O28 XBC 503 F 1 
HETATM 39 O O30 XBC . . . S 6 138.692 168.946 145.455 1 77.45 ? O30 XBC 503 F 1 
HETATM 40 O O34 XBC . . . S 6 137.057 172.734 144.896 1 70.67 ? O34 XBC 503 F 1 
HETATM 41 O O37 XBC . . . S 6 135.146 173.048 149.348 1 69.98 ? O37 XBC 503 F 1 
HETATM 42 O O42 XBC . . . S 6 138.895 171.033 144.594 1 69.89 ? O42 XBC 503 F 1 
#
_model_server_stats.io_time_ms              31 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    71 
_model_server_stats.query_time_ms           358 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           42 
#