data_5L09
#
_model_server_result.job_id            QynllAkSYN0Hhzii-dYAuA 
_model_server_result.datetime_utc      '2024-12-01 04:00:44' 
_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          5l09 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    5L09 
#
_exptl.entry_id    5L09 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              213.23 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            3-oxo-N-[(3S)-2-oxotetrahydrofuran-3-yl]hexanamide 
_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            5L09 
_cell.length_a            63.878 
_cell.length_b            122.775 
_cell.length_c            107.603 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5L09 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 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,S,T,U 
_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 C N N 
? 2 K 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 C VAL 35 A VAL 35 1_555 A N MSE 36 A MSE 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? 
covale ? covale2 A C MSE 36 A MSE 36 1_555 A N ASN 37 A ASN 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale3 A C ASN 120 A ASN 120 1_555 A N MSE 121 A MSE 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 A C MSE 121 A MSE 121 1_555 A N ALA 122 A ALA 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale5 A C GLN 148 A GLN 148 1_555 A N MSE 149 A MSE 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale6 A C MSE 149 A MSE 149 1_555 A N LEU 150 A LEU 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale7 A C LYS 157 A LYS 157 1_555 A N MSE 158 A MSE 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale8 A C MSE 158 A MSE 158 1_555 A N LEU 159 A LEU 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
covale ? covale9 B C VAL 35 B VAL 35 1_555 B N MSE 36 B MSE 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? 
covale ? covale10 B C MSE 36 B MSE 36 1_555 B N ASN 37 B ASN 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? 
covale ? covale11 B C ASN 120 B ASN 120 1_555 B N MSE 121 B MSE 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale12 B C MSE 121 B MSE 121 1_555 B N ALA 122 B ALA 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? 
covale ? covale13 B C GLN 148 B GLN 148 1_555 B N MSE 149 B MSE 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale14 B C MSE 149 B MSE 149 1_555 B N LEU 150 B LEU 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? 
covale ? covale15 B C LYS 157 B LYS 157 1_555 B N MSE 158 B MSE 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? 
covale ? covale16 B C MSE 158 B MSE 158 1_555 B N LEU 159 B LEU 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
#
_chem_comp.formula           'C10 H15 N O4' 
_chem_comp.formula_weight    213.23 
_chem_comp.id                482 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              3-oxo-N-[(3S)-2-oxotetrahydrofuran-3-yl]hexanamide 
_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
O12 C11 482 doub 1 n n 
O9 C8 482 doub 2 n n 
C10 C8 482 sing 3 n n 
C10 C11 482 sing 4 n n 
C8 N7 482 sing 5 n n 
C11 C13 482 sing 6 n n 
N7 C1 482 sing 7 n n 
C1 C5 482 sing 8 n n 
C1 C2 482 sing 9 n n 
C5 C4 482 sing 10 n n 
C15 C14 482 sing 11 n n 
C13 C14 482 sing 12 n n 
C2 O6 482 doub 13 n n 
C2 OAP 482 sing 14 n n 
C4 OAP 482 sing 15 n n 
C15 H1 482 sing 16 n n 
C15 H2 482 sing 17 n n 
C15 H3 482 sing 18 n n 
C14 H4 482 sing 19 n n 
C14 H5 482 sing 20 n n 
C13 H6 482 sing 21 n n 
C13 H7 482 sing 22 n n 
C10 H8 482 sing 23 n n 
C10 H9 482 sing 24 n n 
N7 H10 482 sing 25 n n 
C1 H11 482 sing 26 n n 
C5 H12 482 sing 27 n n 
C5 H13 482 sing 28 n n 
C4 H14 482 sing 29 n n 
C4 H15 482 sing 30 n n 
#
_atom_sites.entry_id                     5L09 
_atom_sites.fract_transf_matrix[1][1]    0.015655 
_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]    0.008145 
_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]    0.009293 
_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 2 482 A 1 201 200 482 KHL . 
D 3 SO4 A 1 202 201 SO4 SO4 . 
E 4 EDO A 1 203 202 EDO EDO . 
F 4 EDO A 1 204 203 EDO EDO . 
G 4 EDO A 1 205 204 EDO EDO . 
H 5 ACY A 1 206 206 ACY ACY . 
I 5 ACY A 1 207 207 ACY ACY . 
J 5 ACY B 1 201 205 ACY ACY . 
K 2 482 B 1 202 200 482 KHL . 
L 3 SO4 B 1 203 201 SO4 SO4 . 
M 3 SO4 B 1 204 202 SO4 SO4 . 
N 4 EDO B 1 205 203 EDO EDO . 
O 4 EDO B 1 206 204 EDO EDO . 
P 4 EDO B 1 207 205 EDO EDO . 
Q 5 ACY B 1 208 206 ACY ACY . 
R 4 EDO B 1 209 207 EDO EDO . 
S 4 EDO B 1 210 208 EDO EDO . 
T 6 HOH A 1 301 130 HOH HOH . 
T 6 HOH A 2 302 67 HOH HOH . 
T 6 HOH A 3 303 48 HOH HOH . 
T 6 HOH A 4 304 37 HOH HOH . 
T 6 HOH A 5 305 103 HOH HOH . 
T 6 HOH A 6 306 9 HOH HOH . 
T 6 HOH A 7 307 31 HOH HOH . 
T 6 HOH A 8 308 49 HOH HOH . 
T 6 HOH A 9 309 62 HOH HOH . 
T 6 HOH A 10 310 106 HOH HOH . 
T 6 HOH A 11 311 102 HOH HOH . 
T 6 HOH A 12 312 122 HOH HOH . 
T 6 HOH A 13 313 34 HOH HOH . 
T 6 HOH A 14 314 13 HOH HOH . 
T 6 HOH A 15 315 108 HOH HOH . 
T 6 HOH A 16 316 16 HOH HOH . 
T 6 HOH A 17 317 101 HOH HOH . 
T 6 HOH A 18 318 11 HOH HOH . 
T 6 HOH A 19 319 116 HOH HOH . 
T 6 HOH A 20 320 44 HOH HOH . 
T 6 HOH A 21 321 15 HOH HOH . 
T 6 HOH A 22 322 76 HOH HOH . 
T 6 HOH A 23 323 12 HOH HOH . 
T 6 HOH A 24 324 14 HOH HOH . 
T 6 HOH A 25 325 113 HOH HOH . 
T 6 HOH A 26 326 30 HOH HOH . 
T 6 HOH A 27 327 3 HOH HOH . 
T 6 HOH A 28 328 114 HOH HOH . 
T 6 HOH A 29 329 79 HOH HOH . 
T 6 HOH A 30 330 26 HOH HOH . 
T 6 HOH A 31 331 136 HOH HOH . 
T 6 HOH A 32 332 2 HOH HOH . 
T 6 HOH A 33 333 59 HOH HOH . 
T 6 HOH A 34 334 105 HOH HOH . 
T 6 HOH A 35 335 109 HOH HOH . 
T 6 HOH A 36 336 58 HOH HOH . 
T 6 HOH A 37 337 115 HOH HOH . 
T 6 HOH A 38 338 93 HOH HOH . 
T 6 HOH A 39 339 25 HOH HOH . 
T 6 HOH A 40 340 22 HOH HOH . 
T 6 HOH A 41 341 51 HOH HOH . 
T 6 HOH A 42 342 17 HOH HOH . 
T 6 HOH A 43 343 28 HOH HOH . 
T 6 HOH A 44 344 56 HOH HOH . 
T 6 HOH A 45 345 57 HOH HOH . 
T 6 HOH A 46 346 132 HOH HOH . 
T 6 HOH A 47 347 131 HOH HOH . 
T 6 HOH A 48 348 97 HOH HOH . 
T 6 HOH A 49 349 126 HOH HOH . 
T 6 HOH A 50 350 107 HOH HOH . 
T 6 HOH A 51 351 90 HOH HOH . 
T 6 HOH A 52 352 64 HOH HOH . 
T 6 HOH A 53 353 80 HOH HOH . 
T 6 HOH A 54 354 66 HOH HOH . 
T 6 HOH A 55 355 73 HOH HOH . 
T 6 HOH A 56 356 29 HOH HOH . 
T 6 HOH A 57 357 45 HOH HOH . 
T 6 HOH A 58 358 78 HOH HOH . 
T 6 HOH A 59 359 32 HOH HOH . 
T 6 HOH A 60 360 96 HOH HOH . 
T 6 HOH A 61 361 88 HOH HOH . 
T 6 HOH A 62 362 5 HOH HOH . 
T 6 HOH A 63 363 100 HOH HOH . 
T 6 HOH A 64 364 7 HOH HOH . 
T 6 HOH A 65 365 69 HOH HOH . 
T 6 HOH A 66 366 53 HOH HOH . 
T 6 HOH A 67 367 104 HOH HOH . 
T 6 HOH A 68 368 86 HOH HOH . 
T 6 HOH A 69 369 92 HOH HOH . 
T 6 HOH A 70 370 60 HOH HOH . 
T 6 HOH A 71 371 99 HOH HOH . 
T 6 HOH A 72 372 133 HOH HOH . 
T 6 HOH A 73 373 85 HOH HOH . 
T 6 HOH A 74 374 129 HOH HOH . 
T 6 HOH A 75 375 68 HOH HOH . 
T 6 HOH A 76 376 121 HOH HOH . 
T 6 HOH A 77 377 110 HOH HOH . 
T 6 HOH A 78 378 124 HOH HOH . 
U 6 HOH B 1 301 128 HOH HOH . 
U 6 HOH B 2 302 135 HOH HOH . 
U 6 HOH B 3 303 10 HOH HOH . 
U 6 HOH B 4 304 42 HOH HOH . 
U 6 HOH B 5 305 38 HOH HOH . 
U 6 HOH B 6 306 23 HOH HOH . 
U 6 HOH B 7 307 8 HOH HOH . 
U 6 HOH B 8 308 95 HOH HOH . 
U 6 HOH B 9 309 98 HOH HOH . 
U 6 HOH B 10 310 27 HOH HOH . 
U 6 HOH B 11 311 43 HOH HOH . 
U 6 HOH B 12 312 52 HOH HOH . 
U 6 HOH B 13 313 18 HOH HOH . 
U 6 HOH B 14 314 83 HOH HOH . 
U 6 HOH B 15 315 55 HOH HOH . 
U 6 HOH B 16 316 24 HOH HOH . 
U 6 HOH B 17 317 75 HOH HOH . 
U 6 HOH B 18 318 1 HOH HOH . 
U 6 HOH B 19 319 4 HOH HOH . 
U 6 HOH B 20 320 54 HOH HOH . 
U 6 HOH B 21 321 39 HOH HOH . 
U 6 HOH B 22 322 127 HOH HOH . 
U 6 HOH B 23 323 123 HOH HOH . 
U 6 HOH B 24 324 6 HOH HOH . 
U 6 HOH B 25 325 87 HOH HOH . 
U 6 HOH B 26 326 36 HOH HOH . 
U 6 HOH B 27 327 33 HOH HOH . 
U 6 HOH B 28 328 65 HOH HOH . 
U 6 HOH B 29 329 35 HOH HOH . 
U 6 HOH B 30 330 71 HOH HOH . 
U 6 HOH B 31 331 72 HOH HOH . 
U 6 HOH B 32 332 50 HOH HOH . 
U 6 HOH B 33 333 89 HOH HOH . 
U 6 HOH B 34 334 117 HOH HOH . 
U 6 HOH B 35 335 40 HOH HOH . 
U 6 HOH B 36 336 19 HOH HOH . 
U 6 HOH B 37 337 47 HOH HOH . 
U 6 HOH B 38 338 84 HOH HOH . 
U 6 HOH B 39 339 94 HOH HOH . 
U 6 HOH B 40 340 74 HOH HOH . 
U 6 HOH B 41 341 119 HOH HOH . 
U 6 HOH B 42 342 21 HOH HOH . 
U 6 HOH B 43 343 81 HOH HOH . 
U 6 HOH B 44 344 41 HOH HOH . 
U 6 HOH B 45 345 120 HOH HOH . 
U 6 HOH B 46 346 20 HOH HOH . 
U 6 HOH B 47 347 82 HOH HOH . 
U 6 HOH B 48 348 134 HOH HOH . 
U 6 HOH B 49 349 112 HOH HOH . 
U 6 HOH B 50 350 118 HOH HOH . 
U 6 HOH B 51 351 63 HOH HOH . 
U 6 HOH B 52 352 111 HOH HOH . 
U 6 HOH B 53 353 46 HOH HOH . 
U 6 HOH B 54 354 125 HOH HOH . 
U 6 HOH B 55 355 91 HOH HOH . 
U 6 HOH B 56 356 70 HOH HOH . 
U 6 HOH B 57 357 77 HOH HOH . 
U 6 HOH B 58 358 61 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 C15 482 . . . C 2 18.678 29.267 -8.816 1 21.04 ? C15 482 201 A 1 
HETATM 2 C C14 482 . . . C 2 18.367 28.421 -7.593 1 19.29 ? C14 482 201 A 1 
HETATM 3 C C13 482 . . . C 2 17.932 29.296 -6.415 1 16.74 ? C13 482 201 A 1 
HETATM 4 C C11 482 . . . C 2 17.592 28.42 -5.214 1 18.58 ? C11 482 201 A 1 
HETATM 5 O O12 482 . . . C 2 17.756 27.21 -5.259 1 19.8 ? O12 482 201 A 1 
HETATM 6 C C10 482 . . . C 2 17.012 29.037 -3.974 1 14.74 ? C10 482 201 A 1 
HETATM 7 C C8 482 . . . C 2 15.688 29.646 -4.385 1 15.54 ? C8 482 201 A 1 
HETATM 8 O O9 482 . . . C 2 14.85 28.969 -4.97 1 19.27 ? O9 482 201 A 1 
HETATM 9 N N7 482 . . . C 2 15.491 30.932 -4.114 1 17.63 ? N7 482 201 A 1 
HETATM 10 C C1 482 . . . C 2 14.26 31.531 -4.587 1 17.17 ? C1 482 201 A 1 
HETATM 11 C C5 482 . . . C 2 13.759 32.665 -3.698 1 14.37 ? C5 482 201 A 1 
HETATM 12 C C4 482 . . . C 2 12.992 33.593 -4.659 1 22.4 ? C4 482 201 A 1 
HETATM 13 C C2 482 . . . C 2 14.399 32.22 -5.909 1 16.93 ? C2 482 201 A 1 
HETATM 14 O O6 482 . . . C 2 15.045 31.836 -6.867 1 22.12 ? O6 482 201 A 1 
HETATM 15 O OAP 482 . . . C 2 13.667 33.435 -5.914 1 22.32 ? OAP 482 201 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           296 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           15 
#