data_5TMF
#
_model_server_result.job_id            vMYB1HUJmK_hB965fUpsUw 
_model_server_result.datetime_utc      '2024-11-01 11:37:20' 
_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          5tmf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"H","auth_seq_id":1201}' 
#
_entry.id    5TMF 
#
_exptl.entry_id    5TMF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              417.495 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'methyl [(1E,5R)-5-{(3S)-3-[(2E,4E)-2,5-dimethylocta-2,4-dienoyl]-2,4-dioxo-3,4-dihydro-2H-pyran-6-yl}hexylidene]carbamate' 
_entity.pdbx_number_of_molecules    1 
_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         120 
_cell.entry_id            5TMF 
_cell.length_a            235.09 
_cell.length_b            235.09 
_cell.length_c            250.88 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5TMF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      7 
_struct_asym.id                             H 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 D SG CYS 58 D CYS 58 1_555 I ZN ZN . D ZN 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? 
metalc ? metalc2 D SG CYS 60 D CYS 60 1_555 I ZN ZN . D ZN 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? 
metalc ? metalc3 D SG CYS 73 D CYS 73 1_555 I ZN ZN . D ZN 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? 
metalc ? metalc4 D SG CYS 76 D CYS 76 1_555 I ZN ZN . D ZN 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.381 ? 
metalc ? metalc5 D OD1 ASP 739 D ASP 739 1_555 M MG MG . D MG 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? 
metalc ? metalc6 D OD1 ASP 741 D ASP 741 1_555 M MG MG . D MG 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? 
metalc ? metalc7 D OD2 ASP 741 D ASP 741 1_555 M MG MG . D MG 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.98 ? 
metalc ? metalc8 D OD1 ASP 743 D ASP 743 1_555 M MG MG . D MG 1605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? 
metalc ? metalc9 D O LYS 840 D LYS 840 1_555 L MG MG . D MG 1604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? 
metalc ? metalc10 D SG CYS 1112 D CYS 1112 1_555 J ZN ZN . D ZN 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc11 D SG CYS 1194 D CYS 1194 1_555 J ZN ZN . D ZN 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.38 ? 
metalc ? metalc12 D SG CYS 1201 D CYS 1201 1_555 J ZN ZN . D ZN 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? 
metalc ? metalc13 D SG CYS 1204 D CYS 1204 1_555 J ZN ZN . D ZN 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? 
#
_chem_comp.formula           'C23 H31 N O6' 
_chem_comp.formula_weight    417.495 
_chem_comp.id                NE6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'methyl [(1E,5R)-5-{(3S)-3-[(2E,4E)-2,5-dimethylocta-2,4-dienoyl]-2,4-dioxo-3,4-dihydro-2H-pyran-6-yl}hexylidene]carbamate' 
_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
C6 O1 NE6 sing 237 n n 
C2 O1 NE6 sing 238 n n 
C3 C2 NE6 sing 239 n n 
C2 O2 NE6 doub 240 n n 
C4 C3 NE6 sing 241 n n 
C15 C3 NE6 sing 242 n n 
C3 H3 NE6 sing 243 n n 
O4 C4 NE6 doub 244 n n 
C4 C5 NE6 sing 245 n n 
C5 C6 NE6 doub 246 n n 
C5 H5 NE6 sing 247 n n 
C6 C7 NE6 sing 248 n n 
C8 C7 NE6 sing 249 n n 
C7 C9 NE6 sing 250 n n 
C7 H7 NE6 sing 251 n n 
C8 H8 NE6 sing 252 n n 
C8 H8A NE6 sing 253 n n 
C8 H8B NE6 sing 254 n n 
C9 C10 NE6 sing 255 n n 
C9 H9 NE6 sing 256 n n 
C9 H9A NE6 sing 257 n n 
C10 C11 NE6 sing 258 n n 
C10 H10 NE6 sing 259 n n 
C10 H10A NE6 sing 260 n n 
C11 C12 NE6 sing 261 n n 
C11 H11 NE6 sing 262 n n 
C11 H11A NE6 sing 263 n n 
C12 N12 NE6 doub 264 n n 
C12 H12 NE6 sing 265 n n 
N12 C13 NE6 sing 266 n n 
O13 C13 NE6 doub 267 n n 
C13 O14 NE6 sing 268 n n 
O14 C14 NE6 sing 269 n n 
C14 H14 NE6 sing 270 e n 
C14 H14A NE6 sing 271 n n 
C14 H14B NE6 sing 272 n n 
O15 C15 NE6 doub 273 n n 
C15 C16 NE6 sing 274 n n 
C17 C16 NE6 sing 275 n n 
C16 C18 NE6 doub 276 n n 
C17 H17 NE6 sing 277 e n 
C17 H17A NE6 sing 278 n n 
C17 H17B NE6 sing 279 n n 
C18 C19 NE6 sing 280 n n 
C18 H18 NE6 sing 281 n n 
C19 C20 NE6 doub 282 n n 
C19 H19 NE6 sing 283 n n 
C20 C21 NE6 sing 284 n n 
C20 C22 NE6 sing 285 n n 
C21 H21 NE6 sing 286 n n 
C21 H21A NE6 sing 287 n n 
C21 H21B NE6 sing 288 n n 
C22 C23 NE6 sing 289 n n 
C22 H22 NE6 sing 290 n n 
C22 H22A NE6 sing 291 n n 
C23 C24 NE6 sing 292 n n 
C23 H23 NE6 sing 293 n n 
C23 H23A NE6 sing 294 n n 
C24 H24 NE6 sing 295 n n 
C24 H24A NE6 sing 296 n n 
C24 H24B NE6 sing 297 n n 
#
_atom_sites.entry_id                     5TMF 
_atom_sites.fract_transf_matrix[1][1]    0.004254 
_atom_sites.fract_transf_matrix[1][2]    0.002456 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.004912 
_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]    0.003986 
_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
G 6 PO4 A 1 401 1 PO4 PO4 . 
H 7 NE6 C 1 1201 1529 NE6 NE6 . 
I 8 ZN D 1 1601 1525 ZN ZN . 
J 8 ZN D 1 1602 1526 ZN ZN . 
K 6 PO4 D 1 1603 2 PO4 PO4 . 
L 9 MG D 1 1604 1 MG MG . 
M 9 MG D 1 1605 1 MG MG . 
N 10 HOH A 1 501 17 HOH HOH . 
N 10 HOH A 2 502 5 HOH HOH . 
O 10 HOH B 1 401 36 HOH HOH . 
O 10 HOH B 2 402 33 HOH HOH . 
O 10 HOH B 3 403 6 HOH HOH . 
P 10 HOH C 1 1301 9 HOH HOH . 
P 10 HOH C 2 1302 45 HOH HOH . 
P 10 HOH C 3 1303 38 HOH HOH . 
P 10 HOH C 4 1304 50 HOH HOH . 
P 10 HOH C 5 1305 27 HOH HOH . 
P 10 HOH C 6 1306 46 HOH HOH . 
P 10 HOH C 7 1307 14 HOH HOH . 
P 10 HOH C 8 1308 47 HOH HOH . 
P 10 HOH C 9 1309 12 HOH HOH . 
P 10 HOH C 10 1310 3 HOH HOH . 
P 10 HOH C 11 1311 10 HOH HOH . 
P 10 HOH C 12 1312 4 HOH HOH . 
P 10 HOH C 13 1313 15 HOH HOH . 
P 10 HOH C 14 1314 30 HOH HOH . 
P 10 HOH C 15 1315 23 HOH HOH . 
P 10 HOH C 16 1316 43 HOH HOH . 
P 10 HOH C 17 1317 28 HOH HOH . 
P 10 HOH C 18 1318 31 HOH HOH . 
P 10 HOH C 19 1319 40 HOH HOH . 
P 10 HOH C 20 1320 41 HOH HOH . 
P 10 HOH C 21 1321 24 HOH HOH . 
P 10 HOH C 22 1322 16 HOH HOH . 
P 10 HOH C 23 1323 37 HOH HOH . 
Q 10 HOH D 1 1701 22 HOH HOH . 
Q 10 HOH D 2 1702 25 HOH HOH . 
Q 10 HOH D 3 1703 52 HOH HOH . 
Q 10 HOH D 4 1704 44 HOH HOH . 
Q 10 HOH D 5 1705 49 HOH HOH . 
Q 10 HOH D 6 1706 34 HOH HOH . 
Q 10 HOH D 7 1707 26 HOH HOH . 
Q 10 HOH D 8 1708 19 HOH HOH . 
Q 10 HOH D 9 1709 51 HOH HOH . 
Q 10 HOH D 10 1710 20 HOH HOH . 
Q 10 HOH D 11 1711 29 HOH HOH . 
Q 10 HOH D 12 1712 18 HOH HOH . 
Q 10 HOH D 13 1713 48 HOH HOH . 
Q 10 HOH D 14 1714 21 HOH HOH . 
Q 10 HOH D 15 1715 39 HOH HOH . 
Q 10 HOH D 16 1716 7 HOH HOH . 
Q 10 HOH D 17 1717 13 HOH HOH . 
Q 10 HOH D 18 1718 8 HOH HOH . 
Q 10 HOH D 19 1719 2 HOH HOH . 
Q 10 HOH D 20 1720 1 HOH HOH . 
R 10 HOH F 1 501 11 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 O O1 NE6 . . . H 7 -9.472 194.425 1.911 1 104.79 ? O1 NE6 1201 C 1 
HETATM 2 C C2 NE6 . . . H 7 -9.866 195.743 1.9 1 105.86 ? C2 NE6 1201 C 1 
HETATM 3 C C3 NE6 . . . H 7 -11.315 195.998 1.863 1 103.65 ? C3 NE6 1201 C 1 
HETATM 4 O O2 NE6 . . . H 7 -9.051 196.706 1.908 1 104.45 ? O2 NE6 1201 C 1 
HETATM 5 C C4 NE6 . . . H 7 -12.253 194.845 1.852 1 97.15 ? C4 NE6 1201 C 1 
HETATM 6 C C5 NE6 . . . H 7 -11.737 193.558 1.87 1 90.41 ? C5 NE6 1201 C 1 
HETATM 7 C C6 NE6 . . . H 7 -10.352 193.355 1.898 1 90.82 ? C6 NE6 1201 C 1 
HETATM 8 C C7 NE6 . . . H 7 -9.76 191.982 1.933 1 85.29 ? C7 NE6 1201 C 1 
HETATM 9 C C8 NE6 . . . H 7 -10.282 191.068 0.833 1 84.75 ? C8 NE6 1201 C 1 
HETATM 10 C C9 NE6 . . . H 7 -9.974 191.329 3.304 1 80.6 ? C9 NE6 1201 C 1 
HETATM 11 C C10 NE6 . . . H 7 -9.527 192.234 4.446 1 77.91 ? C10 NE6 1201 C 1 
HETATM 12 C C11 NE6 . . . H 7 -9.524 191.552 5.791 1 79.53 ? C11 NE6 1201 C 1 
HETATM 13 C C12 NE6 . . . H 7 -8.358 191.14 6.283 1 82.22 ? C12 NE6 1201 C 1 
HETATM 14 C C13 NE6 . . . H 7 -7.041 190.191 7.844 1 80.11 ? C13 NE6 1201 C 1 
HETATM 15 C C14 NE6 . . . H 7 -5.597 189.535 9.717 1 76.25 ? C14 NE6 1201 C 1 
HETATM 16 C C15 NE6 . . . H 7 -11.765 197.411 1.886 1 103.6 ? C15 NE6 1201 C 1 
HETATM 17 C C16 NE6 . . . H 7 -12.319 197.911 3.134 1 97.44 ? C16 NE6 1201 C 1 
HETATM 18 C C17 NE6 . . . H 7 -13.811 198.103 3.239 1 101.79 ? C17 NE6 1201 C 1 
HETATM 19 C C18 NE6 . . . H 7 -11.455 198.154 4.14 1 95.91 ? C18 NE6 1201 C 1 
HETATM 20 C C19 NE6 . . . H 7 -11.833 198.681 5.464 1 105.71 ? C19 NE6 1201 C 1 
HETATM 21 C C20 NE6 . . . H 7 -12.023 197.996 6.621 1 101.04 ? C20 NE6 1201 C 1 
HETATM 22 C C21 NE6 . . . H 7 -11.872 196.5 6.66 1 92.33 ? C21 NE6 1201 C 1 
HETATM 23 C C22 NE6 . . . H 7 -12.407 198.752 7.896 1 101.58 ? C22 NE6 1201 C 1 
HETATM 24 C C23 NE6 . . . H 7 -11.371 199.827 8.293 1 99.68 ? C23 NE6 1201 C 1 
HETATM 25 C C24 NE6 . . . H 7 -11.883 200.888 9.256 1 83.13 ? C24 NE6 1201 C 1 
HETATM 26 N N12 NE6 . . . H 7 -8.247 190.585 7.417 1 82.45 ? N12 NE6 1201 C 1 
HETATM 27 O O14 NE6 . . . H 7 -6.904 189.581 9.146 1 76.77 ? O14 NE6 1201 C 1 
HETATM 28 O O13 NE6 . . . H 7 -6.008 190.306 7.195 1 79.22 ? O13 NE6 1201 C 1 
HETATM 29 O O4 NE6 . . . H 7 -13.595 195.041 1.817 1 101.02 ? O4 NE6 1201 C 1 
HETATM 30 O O15 NE6 . . . H 7 -11.624 198.138 0.934 1 115.15 ? O15 NE6 1201 C 1 
#
_model_server_stats.io_time_ms              60 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    40 
_model_server_stats.query_time_ms           315 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           30 
#