data_8JFI
#
_model_server_result.job_id            gMn1sZVq_VxYB3EbacwHhg 
_model_server_result.datetime_utc      '2024-10-19 11:49:17' 
_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          8jfi 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":302}' 
#
_entry.id    8JFI 
#
_exptl.entry_id    8JFI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              498.528 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '~{S}-[2-[3-[[(2~{S})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] 3-oxidanylideneoctanethioate' 
_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         90 
_cell.entry_id            8JFI 
_cell.length_a            85.843 
_cell.length_b            252.65 
_cell.length_c            166.44 
_cell.Z_PDB               48 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8JFI 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? hexameric 6 author_defined_assembly 1 
? hexameric 6 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,G,J,K,L,Q,R,W 1 1 
A,B,G,J,K,L,Q,R,W 1 2 
C,D,E,F,H,I,M,N,O,P,S,T,U,V 2 1 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 3_455 -x-1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -85.843 0 83.22 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             K 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_struct_conn.conn_type_id                   covale 
_struct_conn.details                        ? 
_struct_conn.id                             covale1 
_struct_conn.ptnr1_label_asym_id            E 
_struct_conn.ptnr1_label_atom_id            NZ 
_struct_conn.ptnr1_label_comp_id            LYS 
_struct_conn.ptnr1_label_seq_id             160 
_struct_conn.ptnr1_auth_asym_id             E 
_struct_conn.ptnr1_auth_comp_id             LYS 
_struct_conn.ptnr1_auth_seq_id              159 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            O 
_struct_conn.ptnr2_label_atom_id            O2D 
_struct_conn.ptnr2_label_comp_id            NAP 
_struct_conn.ptnr2_label_seq_id             . 
_struct_conn.ptnr2_auth_asym_id             E 
_struct_conn.ptnr2_auth_comp_id             NAP 
_struct_conn.ptnr2_auth_seq_id              301 
_struct_conn.ptnr2_symmetry                 1_555 
_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                1.302 
_struct_conn.pdbx_value_order               ? 
#
_chem_comp.formula           'C19 H35 N2 O9 P S' 
_chem_comp.formula_weight    498.528 
_chem_comp.id                UHC 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '~{S}-[2-[3-[[(2~{S})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] 3-oxidanylideneoctanethioate' 
_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 C7 UHC sing 438 n n 
C6 C5 UHC sing 439 n n 
C7 C8 UHC sing 440 n n 
C4 C5 UHC sing 441 n n 
C4 C3 UHC sing 442 n n 
C3 O3 UHC doub 443 n n 
C3 C2 UHC sing 444 n n 
C2 C1 UHC sing 445 n n 
C1 O1 UHC doub 446 n n 
C1 S1 UHC sing 447 n n 
S1 C43 UHC sing 448 n n 
N41 C42 UHC sing 449 n n 
N41 C39 UHC sing 450 n n 
O40 C39 UHC doub 451 n n 
C43 C42 UHC sing 452 n n 
C39 C38 UHC sing 453 n n 
C38 C37 UHC sing 454 n n 
C37 N36 UHC sing 455 n n 
N36 C34 UHC sing 456 n n 
C34 O35 UHC doub 457 n n 
C34 C32 UHC sing 458 n n 
C31 C29 UHC sing 459 n n 
C32 C29 UHC sing 460 n n 
C32 O33 UHC sing 461 n n 
C30 C29 UHC sing 462 n n 
C29 C28 UHC sing 463 n n 
O23 P24 UHC doub 464 n n 
C28 O27 UHC sing 465 n n 
O27 P24 UHC sing 466 n n 
P24 O26 UHC sing 467 n n 
P24 O2 UHC sing 468 n n 
C2 H1 UHC sing 469 n n 
C2 H2 UHC sing 470 n n 
C4 H3 UHC sing 471 n n 
C4 H4 UHC sing 472 n n 
C5 H5 UHC sing 473 n n 
C5 H6 UHC sing 474 n n 
C6 H7 UHC sing 475 n n 
C6 H8 UHC sing 476 n n 
C7 H9 UHC sing 477 n n 
C7 H10 UHC sing 478 n n 
C8 H11 UHC sing 479 n n 
C8 H12 UHC sing 480 n n 
C8 H13 UHC sing 481 n n 
O26 H14 UHC sing 482 n n 
C28 H15 UHC sing 483 n n 
C28 H16 UHC sing 484 n n 
C30 H17 UHC sing 485 n n 
C30 H18 UHC sing 486 n n 
C30 H19 UHC sing 487 n n 
C31 H20 UHC sing 488 n n 
C31 H21 UHC sing 489 n n 
C31 H22 UHC sing 490 n n 
C32 H23 UHC sing 491 n n 
O33 H24 UHC sing 492 n n 
N36 H25 UHC sing 493 n n 
C37 H26 UHC sing 494 n n 
C37 H27 UHC sing 495 n n 
C38 H28 UHC sing 496 n n 
C38 H29 UHC sing 497 n n 
N41 H30 UHC sing 498 n n 
C42 H31 UHC sing 499 n n 
C42 H32 UHC sing 500 n n 
C43 H33 UHC sing 501 n n 
C43 H34 UHC sing 502 n n 
O2 H35 UHC sing 503 n n 
#
_atom_sites.entry_id                     8JFI 
_atom_sites.fract_transf_matrix[1][1]    0.011649 
_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]    0.003958 
_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]    0.006008 
_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
J 3 NAP A 1 301 301 NAP NAP . 
K 4 UHC A 1 302 101 UHC SHW . 
L 3 NAP B 1 301 301 NAP NAP . 
M 3 NAP C 1 301 301 NAP NAP . 
N 3 NAP D 1 301 301 NAP NAP . 
O 3 NAP E 1 301 301 NAP NAP . 
P 3 NAP F 1 301 301 NAP NAP . 
Q 5 HOH A 1 401 401 HOH HOH . 
Q 5 HOH A 2 402 402 HOH HOH . 
Q 5 HOH A 3 403 403 HOH HOH . 
Q 5 HOH A 4 404 404 HOH HOH . 
Q 5 HOH A 5 405 405 HOH HOH . 
Q 5 HOH A 6 406 406 HOH HOH . 
Q 5 HOH A 7 407 407 HOH HOH . 
Q 5 HOH A 8 408 408 HOH HOH . 
Q 5 HOH A 9 409 409 HOH HOH . 
Q 5 HOH A 10 410 410 HOH HOH . 
Q 5 HOH A 11 411 411 HOH HOH . 
Q 5 HOH A 12 412 412 HOH HOH . 
Q 5 HOH A 13 413 413 HOH HOH . 
Q 5 HOH A 14 414 414 HOH HOH . 
Q 5 HOH A 15 415 415 HOH HOH . 
Q 5 HOH A 16 416 416 HOH HOH . 
Q 5 HOH A 17 417 417 HOH HOH . 
Q 5 HOH A 18 418 418 HOH HOH . 
Q 5 HOH A 19 419 419 HOH HOH . 
Q 5 HOH A 20 420 420 HOH HOH . 
Q 5 HOH A 21 421 421 HOH HOH . 
Q 5 HOH A 22 422 422 HOH HOH . 
Q 5 HOH A 23 423 423 HOH HOH . 
R 5 HOH B 1 401 401 HOH HOH . 
R 5 HOH B 2 402 402 HOH HOH . 
R 5 HOH B 3 403 403 HOH HOH . 
R 5 HOH B 4 404 404 HOH HOH . 
R 5 HOH B 5 405 405 HOH HOH . 
R 5 HOH B 6 406 406 HOH HOH . 
R 5 HOH B 7 407 407 HOH HOH . 
R 5 HOH B 8 408 408 HOH HOH . 
R 5 HOH B 9 409 409 HOH HOH . 
R 5 HOH B 10 410 410 HOH HOH . 
R 5 HOH B 11 411 411 HOH HOH . 
R 5 HOH B 12 412 412 HOH HOH . 
R 5 HOH B 13 413 413 HOH HOH . 
R 5 HOH B 14 414 414 HOH HOH . 
R 5 HOH B 15 415 415 HOH HOH . 
R 5 HOH B 16 416 416 HOH HOH . 
R 5 HOH B 17 417 417 HOH HOH . 
R 5 HOH B 18 418 418 HOH HOH . 
R 5 HOH B 19 419 419 HOH HOH . 
R 5 HOH B 20 420 420 HOH HOH . 
R 5 HOH B 21 421 421 HOH HOH . 
S 5 HOH C 1 401 401 HOH HOH . 
S 5 HOH C 2 402 402 HOH HOH . 
S 5 HOH C 3 403 403 HOH HOH . 
S 5 HOH C 4 404 404 HOH HOH . 
S 5 HOH C 5 405 405 HOH HOH . 
S 5 HOH C 6 406 406 HOH HOH . 
S 5 HOH C 7 407 407 HOH HOH . 
T 5 HOH D 1 401 401 HOH HOH . 
T 5 HOH D 2 402 402 HOH HOH . 
T 5 HOH D 3 403 403 HOH HOH . 
T 5 HOH D 4 404 404 HOH HOH . 
T 5 HOH D 5 405 405 HOH HOH . 
T 5 HOH D 6 406 406 HOH HOH . 
T 5 HOH D 7 407 407 HOH HOH . 
T 5 HOH D 8 408 408 HOH HOH . 
T 5 HOH D 9 409 409 HOH HOH . 
U 5 HOH E 1 401 401 HOH HOH . 
U 5 HOH E 2 402 402 HOH HOH . 
U 5 HOH E 3 403 403 HOH HOH . 
U 5 HOH E 4 404 404 HOH HOH . 
U 5 HOH E 5 405 405 HOH HOH . 
U 5 HOH E 6 406 406 HOH HOH . 
U 5 HOH E 7 407 407 HOH HOH . 
U 5 HOH E 8 408 408 HOH HOH . 
U 5 HOH E 9 409 409 HOH HOH . 
U 5 HOH E 10 410 410 HOH HOH . 
V 5 HOH F 1 401 401 HOH HOH . 
V 5 HOH F 2 402 402 HOH HOH . 
V 5 HOH F 3 403 403 HOH HOH . 
V 5 HOH F 4 404 404 HOH HOH . 
V 5 HOH F 5 405 405 HOH HOH . 
V 5 HOH F 6 406 406 HOH HOH . 
V 5 HOH F 7 407 407 HOH HOH . 
V 5 HOH F 8 408 408 HOH HOH . 
V 5 HOH F 9 409 409 HOH HOH . 
V 5 HOH F 10 410 410 HOH HOH . 
V 5 HOH F 11 411 411 HOH HOH . 
W 5 HOH G 1 201 201 HOH HOH . 
W 5 HOH G 2 202 202 HOH HOH . 
W 5 HOH G 3 203 203 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 UHC . . . K 4 -28.189 -10.695 36.259 1 57.89 ? C1 UHC 302 A 1 
HETATM 2 O O1 UHC . . . K 4 -27.427 -11.559 36.039 1 47.59 ? O1 UHC 302 A 1 
HETATM 3 S S1 UHC . . . K 4 -27.781 -8.963 35.957 1 91.03 ? S1 UHC 302 A 1 
HETATM 4 C C2 UHC . . . K 4 -29.562 -10.882 36.808 1 53 ? C2 UHC 302 A 1 
HETATM 5 C C3 UHC . . . K 4 -29.538 -11.623 38.09 1 50.27 ? C3 UHC 302 A 1 
HETATM 6 O O3 UHC . . . K 4 -29.116 -12.718 38.028 1 48.44 ? O3 UHC 302 A 1 
HETATM 7 C C4 UHC . . . K 4 -30.014 -10.973 39.353 1 50.92 ? C4 UHC 302 A 1 
HETATM 8 C C5 UHC . . . K 4 -30.929 -9.886 38.925 1 50.19 ? C5 UHC 302 A 1 
HETATM 9 C C6 UHC . . . K 4 -32.045 -10.028 39.872 1 49.8 ? C6 UHC 302 A 1 
HETATM 10 O O23 UHC . . . K 4 -34.912 0.789 27.838 1 94.36 ? O23 UHC 302 A 1 
HETATM 11 P P24 UHC . . . K 4 -34.155 0.141 26.716 1 102.04 ? P24 UHC 302 A 1 
HETATM 12 O O26 UHC . . . K 4 -32.909 0.921 26.044 1 80.4 ? O26 UHC 302 A 1 
HETATM 13 O O27 UHC . . . K 4 -33.657 -1.326 27.115 1 76.95 ? O27 UHC 302 A 1 
HETATM 14 C C28 UHC . . . K 4 -34.672 -2.288 27.35 1 68.08 ? C28 UHC 302 A 1 
HETATM 15 C C29 UHC . . . K 4 -34.481 -2.874 28.732 1 64.54 ? C29 UHC 302 A 1 
HETATM 16 C C30 UHC . . . K 4 -35.802 -3.63 28.988 1 63.13 ? C30 UHC 302 A 1 
HETATM 17 C C31 UHC . . . K 4 -34.451 -1.649 29.649 1 69.47 ? C31 UHC 302 A 1 
HETATM 18 C C32 UHC . . . K 4 -33.132 -3.674 28.833 1 57.77 ? C32 UHC 302 A 1 
HETATM 19 O O33 UHC . . . K 4 -32.619 -4.137 27.578 1 45.05 ? O33 UHC 302 A 1 
HETATM 20 C C34 UHC . . . K 4 -33.176 -4.85 29.832 1 61.92 ? C34 UHC 302 A 1 
HETATM 21 O O35 UHC . . . K 4 -33.778 -5.867 29.482 1 62.73 ? O35 UHC 302 A 1 
HETATM 22 N N36 UHC . . . K 4 -32.535 -4.749 31.028 1 57.35 ? N36 UHC 302 A 1 
HETATM 23 C C37 UHC . . . K 4 -32.569 -5.863 31.983 1 51.83 ? C37 UHC 302 A 1 
HETATM 24 C C38 UHC . . . K 4 -31.384 -5.816 32.946 1 57.06 ? C38 UHC 302 A 1 
HETATM 25 C C39 UHC . . . K 4 -31.814 -6.435 34.274 1 63.43 ? C39 UHC 302 A 1 
HETATM 26 O O40 UHC . . . K 4 -32.97 -6.284 34.681 1 64.98 ? O40 UHC 302 A 1 
HETATM 27 N N41 UHC . . . K 4 -30.867 -7.127 34.928 1 63.37 ? N41 UHC 302 A 1 
HETATM 28 C C42 UHC . . . K 4 -29.479 -7.293 34.442 1 61.19 ? C42 UHC 302 A 1 
HETATM 29 C C43 UHC . . . K 4 -29.014 -8.747 34.62 1 59.87 ? C43 UHC 302 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    16 
_model_server_stats.query_time_ms           278 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           29 
#