data_5JDQ
#
_model_server_result.job_id            iA9eCwKhA1q45giLvZypVw 
_model_server_result.datetime_utc      '2024-11-26 17:13:18' 
_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          5jdq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":408}' 
#
_entry.id    5JDQ 
#
_exptl.entry_id    5JDQ 
_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            '(2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate' 
_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            5JDQ 
_cell.length_a            49.876 
_cell.length_b            72.425 
_cell.length_c            95.913 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5JDQ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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 H N N 
? 5 I 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 O ALA 47 A ALA 47 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? 
metalc ? metalc2 A OG1 THR 50 A THR 50 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc3 A O THR 50 A THR 50 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.277 ? 
metalc ? metalc4 A OG SER 51 A SER 51 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.46 ? 
metalc ? metalc5 A OE1 GLU 54 A GLU 54 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? 
metalc ? metalc6 A OE2 GLU 54 A GLU 54 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? 
metalc ? metalc7 A OE2 GLU 54 A GLU 54 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? 
metalc ? metalc8 A OG SER 77 A SER 77 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? 
metalc ? metalc9 A O ILE 118 A ILE 118 1_555 E SR SR . A SR 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? 
metalc ? metalc10 A OD1 ASP 121 A ASP 121 1_555 E SR SR . A SR 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? 
metalc ? metalc11 A O GLY 122 A GLY 122 1_555 E SR SR . A SR 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? 
metalc ? metalc12 A OD2 ASP 127 A ASP 127 1_555 E SR SR . A SR 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? 
metalc ? metalc13 A O ALA 206 A ALA 206 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? 
metalc ? metalc14 A O THR 209 A THR 209 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? 
metalc ? metalc15 A OG1 THR 209 A THR 209 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? 
metalc ? metalc16 A OG SER 210 A SER 210 1_555 D NA NA . A NA 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? 
metalc ? metalc17 A OE2 GLU 213 A GLU 213 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? 
metalc ? metalc18 A OE1 GLU 213 A GLU 213 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? 
metalc ? metalc19 A OE2 GLU 213 A GLU 213 1_555 C NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.416 ? 
metalc ? metalc20 A OG SER 236 A SER 236 1_555 B NA NA . A NA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.433 ? 
metalc ? metalc21 E SR SR . A SR 404 1_555 P O HOH . A HOH 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.896 ? 
#
_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 320 n n 
C10 C9 OLC doub 321 n n 
C10 C11 OLC sing 322 n n 
C9 C8 OLC sing 323 n n 
C17 C16 OLC sing 324 z n 
C11 C12 OLC sing 325 n n 
C8 C7 OLC sing 326 n n 
C24 C22 OLC sing 327 n n 
C24 O25 OLC sing 328 n n 
C16 C15 OLC sing 329 n n 
C12 C13 OLC sing 330 n n 
C7 C6 OLC sing 331 n n 
C15 C14 OLC sing 332 n n 
C13 C14 OLC sing 333 n n 
C6 C5 OLC sing 334 n n 
C5 C4 OLC sing 335 n n 
C4 C3 OLC sing 336 n n 
C3 C2 OLC sing 337 n n 
C2 C1 OLC sing 338 n n 
C21 C22 OLC sing 339 n n 
C21 O20 OLC sing 340 n n 
C1 O19 OLC doub 341 n n 
C1 O20 OLC sing 342 n n 
C22 O23 OLC sing 343 n n 
C18 H18 OLC sing 344 n n 
C18 H18A OLC sing 345 n n 
C18 H18B OLC sing 346 n n 
C10 H10 OLC sing 347 n n 
C9 H9 OLC sing 348 n n 
C17 H17 OLC sing 349 n n 
C17 H17A OLC sing 350 n n 
C11 H11 OLC sing 351 n n 
C11 H11A OLC sing 352 n n 
C8 H8 OLC sing 353 n n 
C8 H8A OLC sing 354 n n 
C24 H24 OLC sing 355 n n 
C24 H24A OLC sing 356 n n 
C16 H16 OLC sing 357 n n 
C16 H16A OLC sing 358 n n 
C12 H12 OLC sing 359 n n 
C12 H12A OLC sing 360 n n 
C7 H7 OLC sing 361 n n 
C7 H7A OLC sing 362 n n 
C15 H15 OLC sing 363 n n 
C15 H15A OLC sing 364 n n 
C13 H13 OLC sing 365 n n 
C13 H13A OLC sing 366 n n 
C6 H6 OLC sing 367 n n 
C6 H6A OLC sing 368 n n 
C14 H14 OLC sing 369 n n 
C14 H14A OLC sing 370 n n 
C5 H5 OLC sing 371 n n 
C5 H5A OLC sing 372 n n 
C4 H4 OLC sing 373 n n 
C4 H4A OLC sing 374 n n 
C3 H3 OLC sing 375 n n 
C3 H3A OLC sing 376 n n 
C2 H2 OLC sing 377 n n 
C2 H2A OLC sing 378 n n 
C21 H21 OLC sing 379 n n 
C21 H21A OLC sing 380 n n 
C22 H22 OLC sing 381 n n 
O25 HO25 OLC sing 382 n n 
O23 HO23 OLC sing 383 n n 
#
_atom_sites.entry_id                     5JDQ 
_atom_sites.fract_transf_matrix[1][1]    0.02005 
_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]    0.013807 
_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]    0.010426 
_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
B 2 NA A 1 401 1 NA NA . 
C 2 NA A 1 402 2 NA NA . 
D 2 NA A 1 403 4 NA NA . 
E 3 SR A 1 404 1 SR SR . 
F 4 CL A 1 405 1 CL CL . 
G 4 CL A 1 406 2 CL CL . 
H 5 OLC A 1 407 1 OLC MON . 
I 5 OLC A 1 408 2 OLC MON . 
J 6 MYS A 1 409 1 MYS FAT . 
K 6 MYS A 1 410 2 MYS FAT . 
L 6 MYS A 1 411 3 MYS FAT . 
M 6 MYS A 1 412 4 MYS FAT . 
N 6 MYS A 1 413 5 MYS FAT . 
O 7 1PE A 1 414 1 1PE PEG . 
P 8 HOH A 1 501 16 HOH HOH . 
P 8 HOH A 2 502 4 HOH HOH . 
P 8 HOH A 3 503 13 HOH HOH . 
P 8 HOH A 4 504 2 HOH HOH . 
P 8 HOH A 5 505 15 HOH HOH . 
P 8 HOH A 6 506 10 HOH HOH . 
P 8 HOH A 7 507 14 HOH HOH . 
P 8 HOH A 8 508 7 HOH HOH . 
P 8 HOH A 9 509 6 HOH HOH . 
P 8 HOH A 10 510 11 HOH HOH . 
P 8 HOH A 11 511 3 HOH HOH . 
P 8 HOH A 12 512 12 HOH HOH . 
P 8 HOH A 13 513 9 HOH HOH . 
P 8 HOH A 14 514 17 HOH HOH . 
P 8 HOH A 15 515 5 HOH HOH . 
P 8 HOH A 16 516 8 HOH HOH . 
P 8 HOH A 17 517 1 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 C24 OLC . . . I 5 13.007 24.311 28.491 1 71.62 ? C24 OLC 408 A 1 
HETATM 2 C C5 OLC . . . I 5 15.647 17.02 27.089 1 71.45 ? C5 OLC 408 A 1 
HETATM 3 C C4 OLC . . . I 5 16.468 18.309 27.047 1 76.67 ? C4 OLC 408 A 1 
HETATM 4 C C3 OLC . . . I 5 16.187 19.165 28.286 1 81.43 ? C3 OLC 408 A 1 
HETATM 5 C C2 OLC . . . I 5 14.699 19.529 28.345 1 74.45 ? C2 OLC 408 A 1 
HETATM 6 C C21 OLC . . . I 5 14.522 22.294 28.35 1 77.27 ? C21 OLC 408 A 1 
HETATM 7 C C1 OLC . . . I 5 14.416 20.413 29.571 1 82.47 ? C1 OLC 408 A 1 
HETATM 8 C C22 OLC . . . I 5 13.664 23.283 27.561 1 76.32 ? C22 OLC 408 A 1 
HETATM 9 O O19 OLC . . . I 5 14.785 20.086 30.699 1 88.52 ? O19 OLC 408 A 1 
HETATM 10 O O25 OLC . . . I 5 12.166 23.652 29.441 1 78.13 ? O25 OLC 408 A 1 
HETATM 11 O O23 OLC . . . I 5 14.502 23.948 26.618 1 85.74 ? O23 OLC 408 A 1 
HETATM 12 O O20 OLC . . . I 5 13.734 21.559 29.292 1 85.95 ? O20 OLC 408 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           339 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           12 
#