data_8J4Z
#
_model_server_result.job_id            CQoxHGj2HqGPKd1GxpYfnw 
_model_server_result.datetime_utc      '2024-12-26 23:16:21' 
_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          8j4z 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"P","auth_seq_id":801}' 
#
_entry.id    8J4Z 
#
_exptl.entry_id    8J4Z 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              849.635 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '~{S}-[2-[3-[[(2~{R})-4-[[[(2~{S},3~{S},4~{S},5~{S})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 3-methylbut-2-enethioate' 
_entity.pdbx_number_of_molecules    6 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dodecameric 
_pdbx_struct_assembly.oligomeric_count      12 
_pdbx_struct_assembly.details               author_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,V,W,X 
_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    ? 
_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
? 4 N N N 
? 4 P N N 
? 4 R N N 
? 4 S N N 
? 4 U N N 
? 4 W N N 
#
_chem_comp.formula           'C26 H42 N7 O17 P3 S' 
_chem_comp.formula_weight    849.635 
_chem_comp.id                TW3 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '~{S}-[2-[3-[[(2~{R})-4-[[[(2~{S},3~{S},4~{S},5~{S})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl] 3-methylbut-2-enethioate' 
_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
O6 P1 TW3 doub 364 n n 
O7 P1 TW3 sing 365 n n 
P1 O8 TW3 sing 366 n n 
P1 O5 TW3 sing 367 n n 
O8 P2 TW3 sing 368 n n 
O9 P2 TW3 doub 369 n n 
O17 P3 TW3 doub 370 n n 
O11 P2 TW3 sing 371 n n 
O11 C17 TW3 sing 372 n n 
P2 O10 TW3 sing 373 n n 
O5 C16 TW3 sing 374 n n 
C17 C18 TW3 sing 375 n n 
C16 C13 TW3 sing 376 n n 
O14 P3 TW3 sing 377 n n 
O14 C26 TW3 sing 378 n n 
P3 O15 TW3 sing 379 n n 
P3 O16 TW3 sing 380 n n 
C18 C26 TW3 sing 381 n n 
C18 O12 TW3 sing 382 n n 
C26 C25 TW3 sing 383 n n 
C13 C14 TW3 sing 384 n n 
C13 C15 TW3 sing 385 n n 
C13 C12 TW3 sing 386 n n 
O4 C12 TW3 sing 387 n n 
O12 C19 TW3 sing 388 n n 
C12 C11 TW3 sing 389 n n 
C25 O13 TW3 sing 390 n n 
C25 C19 TW3 sing 391 n n 
C19 N3 TW3 sing 392 n n 
C11 O3 TW3 doub 393 n n 
C11 N2 TW3 sing 394 n n 
N7 C24 TW3 doub 395 n y 
N7 C23 TW3 sing 396 n y 
N3 C24 TW3 sing 397 n y 
N3 C20 TW3 sing 398 n y 
N2 C10 TW3 sing 399 n n 
C24 C21 TW3 sing 400 n y 
C23 N6 TW3 doub 401 n y 
C20 N4 TW3 doub 402 n y 
C21 N4 TW3 sing 403 n y 
C21 C22 TW3 doub 404 n y 
N6 C22 TW3 sing 405 n y 
C10 C9 TW3 sing 406 n n 
C22 N5 TW3 sing 407 n n 
C9 C8 TW3 sing 408 n n 
C8 N1 TW3 sing 409 n n 
C8 O2 TW3 doub 410 n n 
N1 C7 TW3 sing 411 n n 
C7 C6 TW3 sing 412 n n 
S1 C6 TW3 sing 413 n n 
S1 C5 TW3 sing 414 n n 
C4 C5 TW3 sing 415 n n 
C4 C2 TW3 doub 416 n n 
C5 O1 TW3 doub 417 n n 
C1 C2 TW3 sing 418 n n 
C2 C3 TW3 sing 419 n n 
C1 H1 TW3 sing 420 n n 
C1 H2 TW3 sing 421 n n 
C1 H3 TW3 sing 422 n n 
C10 H4 TW3 sing 423 n n 
C10 H5 TW3 sing 424 n n 
C12 H6 TW3 sing 425 n n 
C14 H7 TW3 sing 426 n n 
C14 H8 TW3 sing 427 n n 
C14 H9 TW3 sing 428 n n 
C15 H10 TW3 sing 429 n n 
C15 H11 TW3 sing 430 n n 
C15 H12 TW3 sing 431 n n 
C16 H13 TW3 sing 432 n n 
C16 H14 TW3 sing 433 n n 
C17 H15 TW3 sing 434 n n 
C17 H16 TW3 sing 435 n n 
C18 H17 TW3 sing 436 n n 
C19 H18 TW3 sing 437 n n 
C20 H19 TW3 sing 438 n n 
C23 H20 TW3 sing 439 n n 
C25 H21 TW3 sing 440 n n 
C26 H22 TW3 sing 441 n n 
C3 H23 TW3 sing 442 n n 
C3 H24 TW3 sing 443 n n 
C3 H25 TW3 sing 444 n n 
C4 H26 TW3 sing 445 n n 
C6 H27 TW3 sing 446 n n 
C6 H28 TW3 sing 447 n n 
C7 H29 TW3 sing 448 n n 
C7 H30 TW3 sing 449 n n 
C9 H31 TW3 sing 450 n n 
C9 H32 TW3 sing 451 n n 
N1 H33 TW3 sing 452 n n 
N2 H34 TW3 sing 453 n n 
N5 H35 TW3 sing 454 n n 
N5 H36 TW3 sing 455 n n 
O10 H37 TW3 sing 456 n n 
O13 H38 TW3 sing 457 n n 
O15 H39 TW3 sing 458 n n 
O16 H40 TW3 sing 459 n n 
O4 H41 TW3 sing 460 n n 
O7 H42 TW3 sing 461 n n 
#
_atom_sites.entry_id                     8J4Z 
_atom_sites.fract_transf_matrix[1][1]    1 
_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]    1 
_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]    1 
_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
M 3 BTI J 1 800 800 BTI BTI . 
N 4 TW3 J 1 801 801 TW3 UN . 
O 3 BTI A 1 800 800 BTI BTI . 
P 4 TW3 A 1 801 801 TW3 UN . 
Q 3 BTI C 1 800 800 BTI BTI . 
R 4 TW3 C 1 801 801 TW3 UN . 
S 4 TW3 F 1 801 801 TW3 UN . 
T 3 BTI F 1 802 800 BTI BTI . 
U 4 TW3 H 1 801 801 TW3 UN . 
V 3 BTI H 1 802 800 BTI BTI . 
W 4 TW3 K 1 801 801 TW3 UN . 
X 3 BTI K 1 802 800 BTI BTI . 
#
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 TW3 . . . P 4 134.579 177.838 176.611 1 111.57 ? C1 TW3 801 A 1 
HETATM 2 C C10 TW3 . . . P 4 124.569 176.63 182.342 1 105.48 ? C10 TW3 801 A 1 
HETATM 3 C C11 TW3 . . . P 4 123.864 175.773 184.522 1 112.2 ? C11 TW3 801 A 1 
HETATM 4 C C12 TW3 . . . P 4 123.618 176.049 186.002 1 112.72 ? C12 TW3 801 A 1 
HETATM 5 C C13 TW3 . . . P 4 124.87 176.289 186.854 1 108.09 ? C13 TW3 801 A 1 
HETATM 6 C C14 TW3 . . . P 4 125.882 175.17 186.607 1 113.25 ? C14 TW3 801 A 1 
HETATM 7 C C15 TW3 . . . P 4 125.513 177.629 186.487 1 106.86 ? C15 TW3 801 A 1 
HETATM 8 C C16 TW3 . . . P 4 124.498 176.309 188.338 1 109.27 ? C16 TW3 801 A 1 
HETATM 9 C C17 TW3 . . . P 4 122.421 182.187 188.511 1 109.11 ? C17 TW3 801 A 1 
HETATM 10 C C18 TW3 . . . P 4 121.61 182.2 187.239 1 109.28 ? C18 TW3 801 A 1 
HETATM 11 C C19 TW3 . . . P 4 122.14 182.795 185.081 1 109.53 ? C19 TW3 801 A 1 
HETATM 12 C C2 TW3 . . . P 4 133.16 177.441 176.335 1 110.04 ? C2 TW3 801 A 1 
HETATM 13 C C20 TW3 . . . P 4 123.46 183.893 183.23 1 114.05 ? C20 TW3 801 A 1 
HETATM 14 C C21 TW3 . . . P 4 124.823 182.353 182.678 1 103.35 ? C21 TW3 801 A 1 
HETATM 15 C C22 TW3 . . . P 4 125.816 181.518 182.127 1 105.51 ? C22 TW3 801 A 1 
HETATM 16 C C23 TW3 . . . P 4 125.126 179.911 183.64 1 114.32 ? C23 TW3 801 A 1 
HETATM 17 C C24 TW3 . . . P 4 124.054 181.834 183.702 1 105.9 ? C24 TW3 801 A 1 
HETATM 18 C C25 TW3 . . . P 4 121.956 184.09 185.858 1 113.36 ? C25 TW3 801 A 1 
HETATM 19 C C26 TW3 . . . P 4 120.963 183.543 186.879 1 109.85 ? C26 TW3 801 A 1 
HETATM 20 C C3 TW3 . . . P 4 133.002 176.62 175.09 1 106.42 ? C3 TW3 801 A 1 
HETATM 21 C C4 TW3 . . . P 4 132.158 177.802 177.146 1 112.93 ? C4 TW3 801 A 1 
HETATM 22 C C5 TW3 . . . P 4 130.71 177.519 177.06 1 115.34 ? C5 TW3 801 A 1 
HETATM 23 C C6 TW3 . . . P 4 128.042 177.394 177.689 1 109.58 ? C6 TW3 801 A 1 
HETATM 24 C C7 TW3 . . . P 4 126.795 177.873 178.421 1 111.66 ? C7 TW3 801 A 1 
HETATM 25 C C8 TW3 . . . P 4 126.098 176.606 180.4 1 109.4 ? C8 TW3 801 A 1 
HETATM 26 C C9 TW3 . . . P 4 126.018 176.575 181.911 1 109.72 ? C9 TW3 801 A 1 
HETATM 27 N N1 TW3 . . . P 4 126.828 177.574 179.845 1 110.19 ? N1 TW3 801 A 1 
HETATM 28 N N2 TW3 . . . P 4 124.409 176.741 183.785 1 105.97 ? N2 TW3 801 A 1 
HETATM 29 N N3 TW3 . . . P 4 123.178 182.833 184.057 1 112.09 ? N3 TW3 801 A 1 
HETATM 30 N N4 TW3 . . . P 4 124.435 183.653 182.389 1 106.24 ? N4 TW3 801 A 1 
HETATM 31 N N5 TW3 . . . P 4 126.624 181.886 181.135 1 105.06 ? N5 TW3 801 A 1 
HETATM 32 N N6 TW3 . . . P 4 125.942 180.274 182.644 1 112.7 ? N6 TW3 801 A 1 
HETATM 33 N N7 TW3 . . . P 4 124.159 180.605 184.233 1 108.05 ? N7 TW3 801 A 1 
HETATM 34 O O1 TW3 . . . P 4 130.224 176.872 176.161 1 114.67 ? O1 TW3 801 A 1 
HETATM 35 O O10 TW3 . . . P 4 121.323 179.234 187.507 1 111.65 ? O10 TW3 801 A 1 
HETATM 36 O O11 TW3 . . . P 4 122.64 180.835 188.961 1 121.21 ? O11 TW3 801 A 1 
HETATM 37 O O12 TW3 . . . P 4 122.464 181.884 186.104 1 103.8 ? O12 TW3 801 A 1 
HETATM 38 O O13 TW3 . . . P 4 121.467 185.172 185.097 1 122.29 ? O13 TW3 801 A 1 
HETATM 39 O O14 TW3 . . . P 4 120.697 184.341 188.036 1 116.4 ? O14 TW3 801 A 1 
HETATM 40 O O15 TW3 . . . P 4 118.643 185.53 187.229 1 117.44 ? O15 TW3 801 A 1 
HETATM 41 O O16 TW3 . . . P 4 120.878 186.689 187.076 1 122.16 ? O16 TW3 801 A 1 
HETATM 42 O O17 TW3 . . . P 4 119.82 186.289 189.326 1 121.58 ? O17 TW3 801 A 1 
HETATM 43 O O2 TW3 . . . P 4 125.494 175.779 179.72 1 112.02 ? O2 TW3 801 A 1 
HETATM 44 O O3 TW3 . . . P 4 123.542 174.687 184.051 1 117.18 ? O3 TW3 801 A 1 
HETATM 45 O O4 TW3 . . . P 4 122.682 177.104 186.136 1 112.14 ? O4 TW3 801 A 1 
HETATM 46 O O5 TW3 . . . P 4 123.435 177.251 188.577 1 111.54 ? O5 TW3 801 A 1 
HETATM 47 O O6 TW3 . . . P 4 122.887 176.637 190.962 1 109.87 ? O6 TW3 801 A 1 
HETATM 48 O O7 TW3 . . . P 4 124.34 178.671 190.428 1 122.59 ? O7 TW3 801 A 1 
HETATM 49 O O8 TW3 . . . P 4 121.878 178.674 189.884 1 114.53 ? O8 TW3 801 A 1 
HETATM 50 O O9 TW3 . . . P 4 120.186 180.458 189.443 1 118.74 ? O9 TW3 801 A 1 
HETATM 51 P P1 TW3 . . . P 4 123.197 177.788 190.069 1 123.65 ? P1 TW3 801 A 1 
HETATM 52 P P2 TW3 . . . P 4 121.404 179.822 188.872 1 123.78 ? P2 TW3 801 A 1 
HETATM 53 P P3 TW3 . . . P 4 119.982 185.782 187.903 1 134.6 ? P3 TW3 801 A 1 
HETATM 54 S S1 TW3 . . . P 4 129.591 178.118 178.276 1 127.51 ? S1 TW3 801 A 1 
#
_model_server_stats.io_time_ms              33 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    77 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           54 
#