data_9DWD
#
_model_server_result.job_id            1WUavCF9V0sp0XhOeyqSDw 
_model_server_result.datetime_utc      '2024-12-01 00:32:26' 
_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          9dwd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"CA","auth_seq_id":301}' 
#
_entry.id    9DWD 
#
_exptl.entry_id    9DWD 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              968.282 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N-[(1S)-1-(3-{4-chloro-3-[(methylsulfonyl)amino]-1-(2,2,2-trifluoroethyl)-1H-indazol-7-yl}-6-[3-methyl-3-(methylsulfonyl)but-1-yn-1-yl]pyridin-2-yl)-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-5,5-difluoro-3-(trifluoromethyl)-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide 
_entity.pdbx_number_of_molecules    18 
_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            9DWD 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9DWD 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octadecameric 
_pdbx_struct_assembly.oligomeric_count      18 
_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,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA 
_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
? 2 S N N 
? 2 T N N 
? 2 U N N 
? 2 V N N 
? 2 W N N 
? 2 X N N 
? 2 Z N N 
? 2 AA N N 
? 2 BA N N 
? 2 CA N N 
? 2 DA N N 
? 2 EA N N 
? 2 FA N N 
? 2 GA N N 
? 2 HA N N 
? 2 IA N N 
? 2 JA N N 
? 2 KA N N 
#
_chem_comp.formula           'C39 H32 Cl F10 N7 O5 S2' 
_chem_comp.formula_weight    968.282 
_chem_comp.id                QNG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N-[(1S)-1-(3-{4-chloro-3-[(methylsulfonyl)amino]-1-(2,2,2-trifluoroethyl)-1H-indazol-7-yl}-6-[3-methyl-3-(methylsulfonyl)but-1-yn-1-yl]pyridin-2-yl)-2-(3,5-difluorophenyl)ethyl]-2-[(3bS,4aR)-5,5-difluoro-3-(trifluoromethyl)-3b,4,4a,5-tetrahydro-1H-cyclopropa[3,4]cyclopenta[1,2-c]pyrazol-1-yl]acetamide 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Lenacapavir 
#
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
C39 C36 QNG sing 329 n n 
C39 C37 QNG sing 330 n n 
F53 C40 QNG sing 331 n n 
F52 C40 QNG sing 332 n n 
C36 C37 QNG sing 333 n n 
C36 C31 QNG sing 334 n n 
C40 C35 QNG sing 335 n n 
C40 F64 QNG sing 336 n n 
C37 C38 QNG sing 337 n n 
C31 C35 QNG sing 338 n y 
C31 C32 QNG doub 339 n y 
C35 N34 QNG doub 340 n y 
F42 C38 QNG sing 341 n n 
C38 C32 QNG sing 342 n n 
C38 F41 QNG sing 343 n n 
C32 N33 QNG sing 344 n y 
N34 N33 QNG sing 345 n y 
N33 C30 QNG sing 346 n n 
F26 C24 QNG sing 347 n n 
C30 C28 QNG sing 348 n n 
C24 C23 QNG doub 349 n y 
C24 C25 QNG sing 350 n y 
C23 C22 QNG sing 351 n y 
C25 C20 QNG doub 352 n y 
C28 O29 QNG doub 353 n n 
C28 N43 QNG sing 354 n n 
C22 F27 QNG sing 355 n n 
C22 C21 QNG doub 356 n y 
N43 C01 QNG sing 357 n n 
O50 S48 QNG doub 358 n n 
C20 C21 QNG sing 359 n y 
C20 C19 QNG sing 360 n n 
C01 C19 QNG sing 361 n n 
C01 C05 QNG sing 362 n n 
O51 S48 QNG doub 363 n n 
S48 N17 QNG sing 364 n n 
S48 C49 QNG sing 365 n n 
N17 C16 QNG sing 366 n n 
C56 C46 QNG sing 367 n n 
N15 C16 QNG doub 368 n y 
N15 N14 QNG sing 369 n y 
C16 C09 QNG sing 370 n y 
C18 N14 QNG sing 371 n n 
C18 C60 QNG sing 372 n n 
N14 C08 QNG sing 373 n y 
C05 N06 QNG doub 374 n y 
C05 C13 QNG sing 375 n y 
N06 C02 QNG sing 376 n y 
C09 C08 QNG doub 377 n y 
C09 C10 QNG sing 378 n y 
O59 S55 QNG doub 379 n n 
C08 C07 QNG sing 380 n y 
F63 C60 QNG sing 381 n n 
CL47 C10 QNG sing 382 n n 
C60 F61 QNG sing 383 n n 
C60 F62 QNG sing 384 n n 
C10 C11 QNG doub 385 n y 
C46 C45 QNG sing 386 n n 
C46 S55 QNG sing 387 n n 
C46 C54 QNG sing 388 n n 
C07 C13 QNG sing 389 n n 
C07 C12 QNG doub 390 n y 
C45 C44 QNG trip 391 n n 
C13 C04 QNG doub 392 n y 
C44 C02 QNG sing 393 n n 
C02 C03 QNG doub 394 n y 
S55 O57 QNG doub 395 n n 
S55 C58 QNG sing 396 n n 
C11 C12 QNG sing 397 n y 
C04 C03 QNG sing 398 n y 
C01 H1 QNG sing 399 n n 
C03 H2 QNG sing 400 n n 
C04 H3 QNG sing 401 n n 
C11 H4 QNG sing 402 n n 
C12 H5 QNG sing 403 n n 
C18 H6 QNG sing 404 n n 
C18 H7 QNG sing 405 n n 
C19 H8 QNG sing 406 n n 
C19 H9 QNG sing 407 n n 
C21 H10 QNG sing 408 n n 
C23 H11 QNG sing 409 n n 
C25 H12 QNG sing 410 n n 
C30 H13 QNG sing 411 n n 
C30 H14 QNG sing 412 n n 
C36 H15 QNG sing 413 n n 
C37 H16 QNG sing 414 n n 
C39 H17 QNG sing 415 n n 
C39 H18 QNG sing 416 n n 
C49 H19 QNG sing 417 n n 
C49 H20 QNG sing 418 n n 
C49 H21 QNG sing 419 n n 
C54 H22 QNG sing 420 n n 
C54 H23 QNG sing 421 n n 
C54 H24 QNG sing 422 n n 
C56 H25 QNG sing 423 n n 
C56 H26 QNG sing 424 n n 
C56 H27 QNG sing 425 n n 
C58 H28 QNG sing 426 n n 
C58 H29 QNG sing 427 n n 
C58 H30 QNG sing 428 n n 
N17 H31 QNG sing 429 n n 
N43 H32 QNG sing 430 n n 
#
_atom_sites.entry_id                     9DWD 
_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
S 2 QNG A 1 301 402 QNG QNG . 
T 2 QNG B 1 301 402 QNG QNG . 
U 2 QNG C 1 301 402 QNG QNG . 
V 2 QNG D 1 301 402 QNG QNG . 
W 2 QNG E 1 301 402 QNG QNG . 
X 2 QNG F 1 301 402 QNG QNG . 
Y 3 IHP G 1 401 401 IHP IHP . 
Z 2 QNG G 1 402 402 QNG QNG . 
AA 2 QNG H 1 301 402 QNG QNG . 
BA 2 QNG I 1 301 402 QNG QNG . 
CA 2 QNG J 1 301 402 QNG QNG . 
DA 2 QNG K 1 301 402 QNG QNG . 
EA 2 QNG L 1 301 402 QNG QNG . 
FA 2 QNG M 1 301 402 QNG QNG . 
GA 2 QNG N 1 301 402 QNG QNG . 
HA 2 QNG O 1 301 402 QNG QNG . 
IA 2 QNG P 1 301 402 QNG QNG . 
JA 2 QNG Q 1 301 402 QNG QNG . 
KA 2 QNG R 1 301 402 QNG QNG . 
#
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 C01 QNG . . . CA 2 122.173 147.302 193.981 1 122.29 ? C01 QNG 301 J 1 
HETATM 2 C C02 QNG . . . CA 2 120.812 146.107 197.276 1 121.88 ? C02 QNG 301 J 1 
HETATM 3 C C03 QNG . . . CA 2 121.692 146.733 198.159 1 121.11 ? C03 QNG 301 J 1 
HETATM 4 C C04 QNG . . . CA 2 122.696 147.52 197.68 1 121.39 ? C04 QNG 301 J 1 
HETATM 5 C C05 QNG . . . CA 2 121.943 147.052 195.469 1 122.18 ? C05 QNG 301 J 1 
HETATM 6 C C07 QNG . . . CA 2 124.055 148.612 196.272 1 122.23 ? C07 QNG 301 J 1 
HETATM 7 C C08 QNG . . . CA 2 125.44 148.411 196.121 1 122.22 ? C08 QNG 301 J 1 
HETATM 8 C C09 QNG . . . CA 2 126.292 149.472 196.078 1 123.18 ? C09 QNG 301 J 1 
HETATM 9 C C10 QNG . . . CA 2 125.774 150.782 196.169 1 122.98 ? C10 QNG 301 J 1 
HETATM 10 C C11 QNG . . . CA 2 124.403 150.984 196.303 1 120.72 ? C11 QNG 301 J 1 
HETATM 11 C C12 QNG . . . CA 2 123.537 149.897 196.349 1 120.95 ? C12 QNG 301 J 1 
HETATM 12 C C13 QNG . . . CA 2 122.813 147.684 196.335 1 122.29 ? C13 QNG 301 J 1 
HETATM 13 C C16 QNG . . . CA 2 127.582 148.968 195.943 1 123.4 ? C16 QNG 301 J 1 
HETATM 14 C C18 QNG . . . CA 2 126.121 145.811 195.971 1 123.63 ? C18 QNG 301 J 1 
HETATM 15 C C19 QNG . . . CA 2 121.061 148.175 193.383 1 120.98 ? C19 QNG 301 J 1 
HETATM 16 C C20 QNG . . . CA 2 121.649 148.775 192.087 1 120.1 ? C20 QNG 301 J 1 
HETATM 17 C C21 QNG . . . CA 2 121.658 148.018 190.926 1 122.31 ? C21 QNG 301 J 1 
HETATM 18 C C22 QNG . . . CA 2 122.19 148.54 189.76 1 121.4 ? C22 QNG 301 J 1 
HETATM 19 C C23 QNG . . . CA 2 122.72 149.821 189.752 1 119.72 ? C23 QNG 301 J 1 
HETATM 20 C C24 QNG . . . CA 2 122.714 150.575 190.917 1 121.1 ? C24 QNG 301 J 1 
HETATM 21 C C25 QNG . . . CA 2 122.182 150.055 192.086 1 120.04 ? C25 QNG 301 J 1 
HETATM 22 C C28 QNG . . . CA 2 123.625 145.704 192.717 1 122.11 ? C28 QNG 301 J 1 
HETATM 23 C C30 QNG . . . CA 2 123.825 144.422 191.879 1 121.82 ? C30 QNG 301 J 1 
HETATM 24 C C31 QNG . . . CA 2 124.311 145.311 188.364 1 122.32 ? C31 QNG 301 J 1 
HETATM 25 C C32 QNG . . . CA 2 123.58 144.691 189.405 1 121.74 ? C32 QNG 301 J 1 
HETATM 26 C C35 QNG . . . CA 2 125.418 145.89 188.92 1 123.07 ? C35 QNG 301 J 1 
HETATM 27 C C36 QNG . . . CA 2 123.551 145.077 187.023 1 123 ? C36 QNG 301 J 1 
HETATM 28 C C37 QNG . . . CA 2 122.204 144.472 187.357 1 123.35 ? C37 QNG 301 J 1 
HETATM 29 C C38 QNG . . . CA 2 122.303 144.021 188.771 1 123.34 ? C38 QNG 301 J 1 
HETATM 30 C C39 QNG . . . CA 2 122.991 143.962 186.171 1 123.98 ? C39 QNG 301 J 1 
HETATM 31 C C40 QNG . . . CA 2 126.497 146.671 188.161 1 124.25 ? C40 QNG 301 J 1 
HETATM 32 C C44 QNG . . . CA 2 119.671 145.215 197.798 1 120.96 ? C44 QNG 301 J 1 
HETATM 33 C C45 QNG . . . CA 2 118.776 144.512 198.171 1 121.57 ? C45 QNG 301 J 1 
HETATM 34 C C46 QNG . . . CA 2 117.605 143.627 198.64 1 124.89 ? C46 QNG 301 J 1 
HETATM 35 C C49 QNG . . . CA 2 131.593 150.294 195.823 1 124.05 ? C49 QNG 301 J 1 
HETATM 36 C C54 QNG . . . CA 2 116.649 144.46 199.52 1 123.89 ? C54 QNG 301 J 1 
HETATM 37 C C56 QNG . . . CA 2 118.155 142.434 199.454 1 124.13 ? C56 QNG 301 J 1 
HETATM 38 C C58 QNG . . . CA 2 115.144 142.184 197.677 1 122.55 ? C58 QNG 301 J 1 
HETATM 39 C C60 QNG . . . CA 2 126.164 145.261 197.409 1 124.06 ? C60 QNG 301 J 1 
HETATM 40 F F26 QNG . . . CA 2 123.233 151.838 190.912 1 125.48 ? F26 QNG 301 J 1 
HETATM 41 F F27 QNG . . . CA 2 122.189 147.781 188.626 1 124.19 ? F27 QNG 301 J 1 
HETATM 42 F F41 QNG . . . CA 2 121.188 144.405 189.463 1 122.71 ? F41 QNG 301 J 1 
HETATM 43 F F42 QNG . . . CA 2 122.448 142.663 188.819 1 125.64 ? F42 QNG 301 J 1 
HETATM 44 F F52 QNG . . . CA 2 127.113 145.84 187.269 1 125.25 ? F52 QNG 301 J 1 
HETATM 45 F F53 QNG . . . CA 2 125.92 147.713 187.493 1 125.34 ? F53 QNG 301 J 1 
HETATM 46 F F61 QNG . . . CA 2 125.315 145.991 198.193 1 121.75 ? F61 QNG 301 J 1 
HETATM 47 F F62 QNG . . . CA 2 125.768 143.954 197.404 1 123.25 ? F62 QNG 301 J 1 
HETATM 48 F F63 QNG . . . CA 2 127.437 145.353 197.899 1 126.65 ? F63 QNG 301 J 1 
HETATM 49 F F64 QNG . . . CA 2 127.418 147.151 189.046 1 124.52 ? F64 QNG 301 J 1 
HETATM 50 N N06 QNG . . . CA 2 120.945 146.272 195.936 1 122.14 ? N06 QNG 301 J 1 
HETATM 51 N N14 QNG . . . CA 2 126.165 147.278 196.021 1 122.36 ? N14 QNG 301 J 1 
HETATM 52 N N15 QNG . . . CA 2 127.508 147.634 195.905 1 123.18 ? N15 QNG 301 J 1 
HETATM 53 N N17 QNG . . . CA 2 128.71 149.898 195.869 1 123.44 ? N17 QNG 301 J 1 
HETATM 54 N N33 QNG . . . CA 2 124.235 144.89 190.546 1 121.29 ? N33 QNG 301 J 1 
HETATM 55 N N34 QNG . . . CA 2 125.395 145.648 190.256 1 122.63 ? N34 QNG 301 J 1 
HETATM 56 N N43 QNG . . . CA 2 122.291 146.068 193.227 1 121.45 ? N43 QNG 301 J 1 
HETATM 57 O O29 QNG . . . CA 2 124.553 146.412 192.938 1 123.25 ? O29 QNG 301 J 1 
HETATM 58 O O50 QNG . . . CA 2 130.344 147.929 195.271 1 124.57 ? O50 QNG 301 J 1 
HETATM 59 O O51 QNG . . . CA 2 130.107 149.512 193.668 1 123.41 ? O51 QNG 301 J 1 
HETATM 60 O O57 QNG . . . CA 2 117.539 142.115 196.359 1 126.32 ? O57 QNG 301 J 1 
HETATM 61 O O59 QNG . . . CA 2 116.452 144.084 196.211 1 124.03 ? O59 QNG 301 J 1 
HETATM 62 S S48 QNG . . . CA 2 130.17 149.379 195.128 1 126.83 ? S48 QNG 301 J 1 
HETATM 63 S S55 QNG . . . CA 2 116.701 143.005 197.17 1 129.63 ? S55 QNG 301 J 1 
HETATM 64 CL CL47 QNG . . . CA 2 126.449 152.436 196.164 1 127.83 ? CL47 QNG 301 J 1 
#
_model_server_stats.io_time_ms              44 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           327 
_model_server_stats.encode_time_ms          18 
_model_server_stats.element_count           64 
#