data_5KKH
#
_model_server_result.job_id            rhHxj9lYd9GogA-NUhqm-Q 
_model_server_result.datetime_utc      '2024-11-02 03:24:55' 
_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          5kkh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":303}' 
#
_entry.id    5KKH 
#
_exptl.entry_id    5KKH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              356.54 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-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          116.26 
_cell.angle_gamma         90 
_cell.entry_id            5KKH 
_cell.length_a            106.11 
_cell.length_b            61.27 
_cell.length_c            119.03 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KKH 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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,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
? 2 D N N 
? 2 F N N 
? 2 H N N 
? 2 I N N 
? 2 L N N 
? 2 M 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
covale ? covale1 A NZ LYS 224 A LYS 224 1_555 G C15 RET . A RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale2 B NZ LYS 224 B LYS 224 1_555 K C15 RET . B RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? 
covale ? covale3 C NZ LYS 224 C LYS 224 1_555 O C15 RET . C RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.289 ? 
#
_chem_comp.formula           'C21 H40 O4' 
_chem_comp.formula_weight    356.54 
_chem_comp.id                OLC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     1-Oleoyl-R-glycerol 
#
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
C18 C17 OLC sing 288 n n 
C10 C9 OLC doub 289 n n 
C10 C11 OLC sing 290 n n 
C9 C8 OLC sing 291 n n 
C17 C16 OLC sing 292 z n 
C11 C12 OLC sing 293 n n 
C8 C7 OLC sing 294 n n 
C24 C22 OLC sing 295 n n 
C24 O25 OLC sing 296 n n 
C16 C15 OLC sing 297 n n 
C12 C13 OLC sing 298 n n 
C7 C6 OLC sing 299 n n 
C15 C14 OLC sing 300 n n 
C13 C14 OLC sing 301 n n 
C6 C5 OLC sing 302 n n 
C5 C4 OLC sing 303 n n 
C4 C3 OLC sing 304 n n 
C3 C2 OLC sing 305 n n 
C2 C1 OLC sing 306 n n 
C21 C22 OLC sing 307 n n 
C21 O20 OLC sing 308 n n 
C1 O19 OLC doub 309 n n 
C1 O20 OLC sing 310 n n 
C22 O23 OLC sing 311 n n 
C18 H18 OLC sing 312 n n 
C18 H18A OLC sing 313 n n 
C18 H18B OLC sing 314 n n 
C10 H10 OLC sing 315 n n 
C9 H9 OLC sing 316 n n 
C17 H17 OLC sing 317 n n 
C17 H17A OLC sing 318 n n 
C11 H11 OLC sing 319 n n 
C11 H11A OLC sing 320 n n 
C8 H8 OLC sing 321 n n 
C8 H8A OLC sing 322 n n 
C24 H24 OLC sing 323 n n 
C24 H24A OLC sing 324 n n 
C16 H16 OLC sing 325 n n 
C16 H16A OLC sing 326 n n 
C12 H12 OLC sing 327 n n 
C12 H12A OLC sing 328 n n 
C7 H7 OLC sing 329 n n 
C7 H7A OLC sing 330 n n 
C15 H15 OLC sing 331 n n 
C15 H15A OLC sing 332 n n 
C13 H13 OLC sing 333 n n 
C13 H13A OLC sing 334 n n 
C6 H6 OLC sing 335 n n 
C6 H6A OLC sing 336 n n 
C14 H14 OLC sing 337 n n 
C14 H14A OLC sing 338 n n 
C5 H5 OLC sing 339 n n 
C5 H5A OLC sing 340 n n 
C4 H4 OLC sing 341 n n 
C4 H4A OLC sing 342 n n 
C3 H3 OLC sing 343 n n 
C3 H3A OLC sing 344 n n 
C2 H2 OLC sing 345 n n 
C2 H2A OLC sing 346 n n 
C21 H21 OLC sing 347 n n 
C21 H21A OLC sing 348 n n 
C22 H22 OLC sing 349 n n 
O25 HO25 OLC sing 350 n n 
O23 HO23 OLC sing 351 n n 
#
_atom_sites.entry_id                     5KKH 
_atom_sites.fract_transf_matrix[1][1]    0.009424 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00465 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016321 
_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]    0.009368 
_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
D 2 OLC A 1 301 3 OLC OLC . 
E 3 OLB A 1 302 5 OLB OLB . 
F 2 OLC A 1 303 7 OLC OLC . 
G 4 RET A 1 304 301 RET RET . 
H 2 OLC B 1 301 4 OLC OLC . 
I 2 OLC B 1 302 6 OLC OLC . 
J 3 OLB B 1 303 9 OLB OLB . 
K 4 RET B 1 304 303 RET RET . 
L 2 OLC C 1 301 1 OLC OLC . 
M 2 OLC C 1 302 2 OLC OLC . 
N 3 OLB C 1 303 8 OLB OLB . 
O 4 RET C 1 304 302 RET RET . 
P 5 HOH A 1 401 19 HOH HOH . 
P 5 HOH A 2 402 69 HOH HOH . 
P 5 HOH A 3 403 67 HOH HOH . 
P 5 HOH A 4 404 43 HOH HOH . 
P 5 HOH A 5 405 4 HOH HOH . 
P 5 HOH A 6 406 75 HOH HOH . 
P 5 HOH A 7 407 50 HOH HOH . 
P 5 HOH A 8 408 18 HOH HOH . 
P 5 HOH A 9 409 1 HOH HOH . 
P 5 HOH A 10 410 47 HOH HOH . 
P 5 HOH A 11 411 87 HOH HOH . 
P 5 HOH A 12 412 49 HOH HOH . 
P 5 HOH A 13 413 36 HOH HOH . 
P 5 HOH A 14 414 22 HOH HOH . 
P 5 HOH A 15 415 5 HOH HOH . 
P 5 HOH A 16 416 59 HOH HOH . 
P 5 HOH A 17 417 14 HOH HOH . 
P 5 HOH A 18 418 70 HOH HOH . 
P 5 HOH A 19 419 21 HOH HOH . 
P 5 HOH A 20 420 76 HOH HOH . 
P 5 HOH A 21 421 63 HOH HOH . 
P 5 HOH A 22 422 80 HOH HOH . 
P 5 HOH A 23 423 20 HOH HOH . 
P 5 HOH A 24 424 2 HOH HOH . 
P 5 HOH A 25 425 51 HOH HOH . 
P 5 HOH A 26 426 45 HOH HOH . 
P 5 HOH A 27 427 42 HOH HOH . 
P 5 HOH A 28 428 7 HOH HOH . 
P 5 HOH A 29 429 79 HOH HOH . 
P 5 HOH A 30 430 33 HOH HOH . 
P 5 HOH A 31 431 60 HOH HOH . 
P 5 HOH A 32 432 77 HOH HOH . 
Q 5 HOH B 1 401 12 HOH HOH . 
Q 5 HOH B 2 402 37 HOH HOH . 
Q 5 HOH B 3 403 83 HOH HOH . 
Q 5 HOH B 4 404 16 HOH HOH . 
Q 5 HOH B 5 405 81 HOH HOH . 
Q 5 HOH B 6 406 15 HOH HOH . 
Q 5 HOH B 7 407 6 HOH HOH . 
Q 5 HOH B 8 408 8 HOH HOH . 
Q 5 HOH B 9 409 10 HOH HOH . 
Q 5 HOH B 10 410 11 HOH HOH . 
Q 5 HOH B 11 411 71 HOH HOH . 
Q 5 HOH B 12 412 55 HOH HOH . 
Q 5 HOH B 13 413 9 HOH HOH . 
Q 5 HOH B 14 414 24 HOH HOH . 
Q 5 HOH B 15 415 54 HOH HOH . 
Q 5 HOH B 16 416 74 HOH HOH . 
Q 5 HOH B 17 417 53 HOH HOH . 
Q 5 HOH B 18 418 85 HOH HOH . 
Q 5 HOH B 19 419 38 HOH HOH . 
Q 5 HOH B 20 420 13 HOH HOH . 
Q 5 HOH B 21 421 82 HOH HOH . 
Q 5 HOH B 22 422 62 HOH HOH . 
R 5 HOH C 1 401 39 HOH HOH . 
R 5 HOH C 2 402 66 HOH HOH . 
R 5 HOH C 3 403 28 HOH HOH . 
R 5 HOH C 4 404 32 HOH HOH . 
R 5 HOH C 5 405 61 HOH HOH . 
R 5 HOH C 6 406 68 HOH HOH . 
R 5 HOH C 7 407 65 HOH HOH . 
R 5 HOH C 8 408 23 HOH HOH . 
R 5 HOH C 9 409 25 HOH HOH . 
R 5 HOH C 10 410 73 HOH HOH . 
R 5 HOH C 11 411 26 HOH HOH . 
R 5 HOH C 12 412 86 HOH HOH . 
R 5 HOH C 13 413 44 HOH HOH . 
R 5 HOH C 14 414 58 HOH HOH . 
R 5 HOH C 15 415 34 HOH HOH . 
R 5 HOH C 16 416 29 HOH HOH . 
R 5 HOH C 17 417 72 HOH HOH . 
R 5 HOH C 18 418 48 HOH HOH . 
R 5 HOH C 19 419 41 HOH HOH . 
R 5 HOH C 20 420 17 HOH HOH . 
R 5 HOH C 21 421 57 HOH HOH . 
R 5 HOH C 22 422 27 HOH HOH . 
R 5 HOH C 23 423 56 HOH HOH . 
R 5 HOH C 24 424 31 HOH HOH . 
R 5 HOH C 25 425 30 HOH HOH . 
R 5 HOH C 26 426 64 HOH HOH . 
R 5 HOH C 27 427 40 HOH HOH . 
R 5 HOH C 28 428 46 HOH HOH . 
R 5 HOH C 29 429 84 HOH HOH . 
R 5 HOH C 30 430 78 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 C18 OLC . . . F 2 -37.906 15.252 132.297 1 21.19 ? C18 OLC 303 A 1 
HETATM 2 C C10 OLC . . . F 2 -35.349 12.749 125.924 1 40.27 ? C10 OLC 303 A 1 
HETATM 3 C C9 OLC . . . F 2 -36.09 13.282 124.944 1 42.5 ? C9 OLC 303 A 1 
HETATM 4 C C17 OLC . . . F 2 -36.417 15.607 132.126 1 37.96 ? C17 OLC 303 A 1 
HETATM 5 C C11 OLC . . . F 2 -34.419 13.644 126.76 1 34.32 ? C11 OLC 303 A 1 
HETATM 6 C C8 OLC . . . F 2 -36.011 14.794 124.655 1 41.29 ? C8 OLC 303 A 1 
HETATM 7 C C24 OLC . . . F 2 -35.607 14.888 114.9 1 52.64 ? C24 OLC 303 A 1 
HETATM 8 C C16 OLC . . . F 2 -35.755 14.597 131.168 1 25.31 ? C16 OLC 303 A 1 
HETATM 9 C C12 OLC . . . F 2 -34.583 13.306 128.252 1 24.61 ? C12 OLC 303 A 1 
HETATM 10 C C7 OLC . . . F 2 -36.785 15.111 123.36 1 38.07 ? C7 OLC 303 A 1 
HETATM 11 C C15 OLC . . . F 2 -34.224 14.738 131.252 1 42.47 ? C15 OLC 303 A 1 
HETATM 12 C C13 OLC . . . F 2 -33.388 13.873 129.041 1 29.21 ? C13 OLC 303 A 1 
HETATM 13 C C6 OLC . . . F 2 -35.786 15.376 122.217 1 53.48 ? C6 OLC 303 A 1 
HETATM 14 C C14 OLC . . . F 2 -33.556 13.547 130.537 1 29.39 ? C14 OLC 303 A 1 
HETATM 15 C C5 OLC . . . F 2 -34.962 14.102 121.945 1 53.86 ? C5 OLC 303 A 1 
HETATM 16 C C4 OLC . . . F 2 -34.155 14.279 120.643 1 55.04 ? C4 OLC 303 A 1 
HETATM 17 C C3 OLC . . . F 2 -34.06 12.928 119.91 1 63.88 ? C3 OLC 303 A 1 
HETATM 18 C C2 OLC . . . F 2 -33.771 13.171 118.419 1 56.91 ? C2 OLC 303 A 1 
HETATM 19 C C21 OLC . . . F 2 -35.82 12.397 115.203 1 52.25 ? C21 OLC 303 A 1 
HETATM 20 C C1 OLC . . . F 2 -34.87 12.507 117.569 1 63.68 ? C1 OLC 303 A 1 
HETATM 21 C C22 OLC . . . F 2 -36.6 13.716 115.034 1 56.57 ? C22 OLC 303 A 1 
HETATM 22 O O19 OLC . . . F 2 -35.791 11.911 118.131 1 52.52 ? O19 OLC 303 A 1 
HETATM 23 O O25 OLC . . . F 2 -36.264 16.151 115.047 1 42.15 ? O25 OLC 303 A 1 
HETATM 24 O O23 OLC . . . F 2 -37.47 13.679 113.9 1 61.03 ? O23 OLC 303 A 1 
HETATM 25 O O20 OLC . . . F 2 -34.761 12.608 116.145 1 72.55 ? O20 OLC 303 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           25 
#