data_6YXF
#
_model_server_result.job_id            s7HtRw4nVC4RYBwMY2xZUA 
_model_server_result.datetime_utc      '2024-10-20 19:26:18' 
_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          6yxf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":404}' 
#
_entry.id    6YXF 
#
_exptl.entry_id    6YXF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              356.54 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' 
_entity.pdbx_number_of_molecules    6 
_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            6YXF 
_cell.length_a            74.64 
_cell.length_b            100.65 
_cell.length_c            111.2 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6YXF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,K,L,M,N,O,P,Q,R 
_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    x,y,z 
_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
? 5 E N N 
? 5 F N N 
? 5 G N N 
? 5 H N N 
? 5 I N N 
? 5 N 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
disulf ? disulf1 B SG CYS 22 H CYS 22 1_555 B SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? 
disulf ? disulf2 B SG CYS 144 H CYS 162 1_555 B SG CYS 209 H CYS 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc1 A NE2 HIS 108 A HIS 202 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc2 A NE2 HIS 254 A HIS 348 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? 
metalc ? metalc3 A NE2 HIS 258 A HIS 352 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? 
metalc ? metalc4 J GD GD . A GD 408 1_555 L N1 DO3 . A DO3 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? 
metalc ? metalc5 J GD GD . A GD 408 1_555 L N4 DO3 . A DO3 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.436 ? 
metalc ? metalc6 J GD GD . A GD 408 1_555 L N2 DO3 . A DO3 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.639 ? 
metalc ? metalc7 J GD GD . A GD 408 1_555 L O3 DO3 . A DO3 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? 
metalc ? metalc8 J GD GD . A GD 408 1_555 L O5 DO3 . A DO3 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.475 ? 
metalc ? metalc9 K GD GD . A GD 409 1_555 M N1 DO3 . A DO3 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? 
metalc ? metalc10 K GD GD . A GD 409 1_555 M N4 DO3 . A DO3 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.026 ? 
metalc ? metalc11 K GD GD . A GD 409 1_555 M N2 DO3 . A DO3 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? 
metalc ? metalc12 K GD GD . A GD 409 1_555 M N3 DO3 . A DO3 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? 
metalc ? metalc13 K GD GD . A GD 409 1_555 M O1 DO3 . A DO3 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.723 ? 
metalc ? metalc14 L N1 DO3 . A DO3 410 1_555 O GD GD . H GD 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.261 ? 
metalc ? metalc15 O GD GD . H GD 302 1_555 P N1 DO3 . H DO3 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? 
metalc ? metalc16 O GD GD . H GD 302 1_555 P N2 DO3 . H DO3 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? 
metalc ? metalc17 O GD GD . H GD 302 1_555 P N3 DO3 . H DO3 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? 
#
_chem_comp.formula           'C21 H40 O4' 
_chem_comp.formula_weight    356.54 
_chem_comp.id                OLB 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' 
_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 O19 OLB doub 350 n n 
C1 O20 OLB sing 351 n n 
C2 C1 OLB sing 352 n n 
C3 C2 OLB sing 353 n n 
C4 C3 OLB sing 354 n n 
C5 C4 OLB sing 355 n n 
C5 C6 OLB sing 356 n n 
O20 C21 OLB sing 357 n n 
C21 C22 OLB sing 358 n n 
C22 C24 OLB sing 359 n n 
O23 C22 OLB sing 360 n n 
C24 O25 OLB sing 361 n n 
C6 C7 OLB sing 362 n n 
C7 C8 OLB sing 363 n n 
C8 C9 OLB sing 364 n n 
C9 C10 OLB doub 365 z n 
C10 C11 OLB sing 366 n n 
C2 H2 OLB sing 367 n n 
C2 H2A OLB sing 368 n n 
C3 H3 OLB sing 369 n n 
C3 H3A OLB sing 370 n n 
C4 H4 OLB sing 371 n n 
C4 H4A OLB sing 372 n n 
C5 H5 OLB sing 373 n n 
C5 H5A OLB sing 374 n n 
C21 H21 OLB sing 375 n n 
C21 H21A OLB sing 376 n n 
C22 H22 OLB sing 377 n n 
O23 HO23 OLB sing 378 n n 
C24 H24 OLB sing 379 n n 
C24 H24A OLB sing 380 n n 
O25 HO25 OLB sing 381 n n 
C6 H16 OLB sing 382 n n 
C6 H17 OLB sing 383 n n 
C7 H18 OLB sing 384 n n 
C7 H19 OLB sing 385 n n 
C8 H20 OLB sing 386 n n 
C8 H211 OLB sing 387 n n 
C9 H221 OLB sing 388 n n 
C10 H23 OLB sing 389 n n 
C11 H241 OLB sing 390 n n 
C11 H25 OLB sing 391 n n 
C11 C12 OLB sing 392 n n 
C12 H26 OLB sing 393 n n 
C12 C13 OLB sing 394 n n 
C12 H27 OLB sing 395 n n 
C13 C14 OLB sing 396 n n 
C13 H28 OLB sing 397 n n 
C13 H29 OLB sing 398 n n 
C14 H30 OLB sing 399 n n 
C14 H31 OLB sing 400 n n 
C14 C15 OLB sing 401 n n 
C15 C16 OLB sing 402 n n 
C15 H32 OLB sing 403 n n 
C15 H33 OLB sing 404 n n 
C16 H34 OLB sing 405 n n 
C16 H35 OLB sing 406 n n 
C16 C17 OLB sing 407 n n 
C17 C18 OLB sing 408 n n 
C17 H36 OLB sing 409 n n 
C17 H37 OLB sing 410 n n 
C18 H38 OLB sing 411 n n 
C18 H39 OLB sing 412 n n 
C18 H40 OLB sing 413 n n 
#
_atom_sites.entry_id                     6YXF 
_atom_sites.fract_transf_matrix[1][1]    0.013398 
_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]    0.009935 
_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]    0.008993 
_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 ZN A 1 401 401 ZN ZN . 
D 4 OLA A 1 402 402 OLA OLA . 
E 5 OLB A 1 403 404 OLB OLB . 
F 5 OLB A 1 404 406 OLB OLB . 
G 5 OLB A 1 405 407 OLB OLB . 
H 5 OLB A 1 406 410 OLB OLB . 
I 5 OLB A 1 407 411 OLB OLB . 
J 6 GD A 1 408 1 GD GD . 
K 6 GD A 1 409 4 GD GD . 
L 7 DO3 A 1 410 1 DO3 DO3 . 
M 7 DO3 A 1 411 2 DO3 DO3 . 
N 5 OLB H 1 301 301 OLB OLB . 
O 6 GD H 1 302 2 GD GD . 
P 7 DO3 H 1 303 3 DO3 DO3 . 
Q 8 HOH A 1 501 99 HOH HOH . 
Q 8 HOH A 2 502 93 HOH HOH . 
Q 8 HOH A 3 503 104 HOH HOH . 
Q 8 HOH A 4 504 57 HOH HOH . 
Q 8 HOH A 5 505 65 HOH HOH . 
Q 8 HOH A 6 506 95 HOH HOH . 
Q 8 HOH A 7 507 16 HOH HOH . 
Q 8 HOH A 8 508 100 HOH HOH . 
Q 8 HOH A 9 509 68 HOH HOH . 
Q 8 HOH A 10 510 14 HOH HOH . 
Q 8 HOH A 11 511 40 HOH HOH . 
Q 8 HOH A 12 512 18 HOH HOH . 
Q 8 HOH A 13 513 60 HOH HOH . 
Q 8 HOH A 14 514 31 HOH HOH . 
R 8 HOH H 1 401 46 HOH HOH . 
R 8 HOH H 2 402 4 HOH HOH . 
R 8 HOH H 3 403 94 HOH HOH . 
R 8 HOH H 4 404 2 HOH HOH . 
R 8 HOH H 5 405 98 HOH HOH . 
R 8 HOH H 6 406 42 HOH HOH . 
R 8 HOH H 7 407 19 HOH HOH . 
R 8 HOH H 8 408 48 HOH HOH . 
R 8 HOH H 9 409 63 HOH HOH . 
R 8 HOH H 10 410 22 HOH HOH . 
R 8 HOH H 11 411 82 HOH HOH . 
R 8 HOH H 12 412 54 HOH HOH . 
R 8 HOH H 13 413 66 HOH HOH . 
R 8 HOH H 14 414 89 HOH HOH . 
R 8 HOH H 15 415 39 HOH HOH . 
R 8 HOH H 16 416 5 HOH HOH . 
R 8 HOH H 17 417 97 HOH HOH . 
R 8 HOH H 18 418 90 HOH HOH . 
R 8 HOH H 19 419 52 HOH HOH . 
R 8 HOH H 20 420 74 HOH HOH . 
R 8 HOH H 21 421 38 HOH HOH . 
R 8 HOH H 22 422 75 HOH HOH . 
R 8 HOH H 23 423 10 HOH HOH . 
R 8 HOH H 24 424 1 HOH HOH . 
R 8 HOH H 25 425 8 HOH HOH . 
R 8 HOH H 26 426 44 HOH HOH . 
R 8 HOH H 27 427 43 HOH HOH . 
R 8 HOH H 28 428 6 HOH HOH . 
R 8 HOH H 29 429 73 HOH HOH . 
R 8 HOH H 30 430 21 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 OLB . . . F 5 1.415 -61.899 -35.661 1 94.22 ? C1 OLB 404 A 1 
HETATM 2 C C2 OLB . . . F 5 1.755 -62.079 -34.213 1 92.88 ? C2 OLB 404 A 1 
HETATM 3 C C3 OLB . . . F 5 2.024 -60.77 -33.491 1 91.72 ? C3 OLB 404 A 1 
HETATM 4 C C4 OLB . . . F 5 0.78 -59.953 -33.252 1 90.79 ? C4 OLB 404 A 1 
HETATM 5 C C5 OLB . . . F 5 0.757 -59.346 -31.88 1 90.34 ? C5 OLB 404 A 1 
HETATM 6 O O19 OLB . . . F 5 0.531 -61.207 -36.081 1 94.55 ? O19 OLB 404 A 1 
HETATM 7 O O20 OLB . . . F 5 2.237 -62.602 -36.438 1 95.11 ? O20 OLB 404 A 1 
HETATM 8 C C21 OLB . . . F 5 2.003 -62.579 -37.864 1 95.67 ? C21 OLB 404 A 1 
HETATM 9 C C22 OLB . . . F 5 1.397 -63.946 -37.972 1 96.4 ? C22 OLB 404 A 1 
HETATM 10 O O23 OLB . . . F 5 -0.024 -63.824 -37.84 1 96.78 ? O23 OLB 404 A 1 
HETATM 11 C C24 OLB . . . F 5 1.779 -64.673 -39.242 1 96.71 ? C24 OLB 404 A 1 
HETATM 12 O O25 OLB . . . F 5 1.893 -66.079 -39.012 1 96.83 ? O25 OLB 404 A 1 
HETATM 13 C C6 OLB . . . F 5 -0.485 -58.521 -31.636 1 90.31 ? C6 OLB 404 A 1 
HETATM 14 C C7 OLB . . . F 5 -0.53 -57.869 -30.258 1 90.12 ? C7 OLB 404 A 1 
HETATM 15 C C8 OLB . . . F 5 0.606 -56.886 -30.007 1 89.71 ? C8 OLB 404 A 1 
HETATM 16 C C9 OLB . . . F 5 0.747 -56.55 -28.577 1 89.46 ? C9 OLB 404 A 1 
HETATM 17 C C10 OLB . . . F 5 1.801 -56.009 -28.001 1 89.36 ? C10 OLB 404 A 1 
HETATM 18 C C11 OLB . . . F 5 3.083 -55.578 -28.639 1 88.77 ? C11 OLB 404 A 1 
HETATM 19 C C12 OLB . . . F 5 4.013 -54.924 -27.607 1 88.18 ? C12 OLB 404 A 1 
HETATM 20 C C13 OLB . . . F 5 5.123 -54.034 -28.183 1 87.24 ? C13 OLB 404 A 1 
HETATM 21 C C14 OLB . . . F 5 6.51 -54.679 -28.285 1 85.97 ? C14 OLB 404 A 1 
HETATM 22 C C15 OLB . . . F 5 7.672 -53.694 -28.402 1 84.88 ? C15 OLB 404 A 1 
HETATM 23 C C16 OLB . . . F 5 8.065 -53.3 -29.822 1 83.95 ? C16 OLB 404 A 1 
HETATM 24 C C17 OLB . . . F 5 7.23 -52.193 -30.432 1 83.25 ? C17 OLB 404 A 1 
HETATM 25 C C18 OLB . . . F 5 6.266 -52.685 -31.462 1 82.85 ? C18 OLB 404 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           25 
#