data_1DVR
#
_model_server_result.job_id            RkubalRK5kBZfBYYKzJixQ 
_model_server_result.datetime_utc      '2024-12-01 22:59:53' 
_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          1dvr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":230}' 
#
_entry.id    1DVR 
#
_exptl.entry_id    1DVR 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              541.189 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'PHOSPHODIFLUOROMETHYLPHOSPHONIC ACID-ADENYLATE ESTER' 
_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            1DVR 
_cell.length_a            47.8 
_cell.length_b            73.4 
_cell.length_c            118.8 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1DVR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 D N N 
#
_chem_comp.formula           'C11 H16 F2 N5 O12 P3' 
_chem_comp.formula_weight    541.189 
_chem_comp.id                ATF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'PHOSPHODIFLUOROMETHYLPHOSPHONIC ACID-ADENYLATE ESTER' 
_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
PG O1G ATF doub 70 n n 
PG O2G ATF sing 71 n n 
PG O3G ATF sing 72 n n 
PG C3B ATF sing 73 n n 
O2G HOG2 ATF sing 74 n n 
O3G HOG3 ATF sing 75 n n 
PB O1B ATF doub 76 n n 
PB O2B ATF sing 77 n n 
PB C3B ATF sing 78 n n 
PB O3A ATF sing 79 n n 
O2B HOB2 ATF sing 80 n n 
C3B F1B ATF sing 81 n n 
C3B F2B ATF sing 82 n n 
PA O1A ATF doub 83 n n 
PA O2A ATF sing 84 n n 
PA O3A ATF sing 85 n n 
PA O5' ATF sing 86 n n 
O2A HOA2 ATF sing 87 n n 
O5' C5' ATF sing 88 n n 
C5' C4' ATF sing 89 n n 
C5' "H5'1" ATF sing 90 n n 
C5' "H5'2" ATF sing 91 n n 
C4' O4' ATF sing 92 n n 
C4' C3' ATF sing 93 n n 
C4' H4' ATF sing 94 n n 
O4' C1' ATF sing 95 n n 
C3' O3' ATF sing 96 n n 
C3' C2' ATF sing 97 n n 
C3' H3' ATF sing 98 n n 
O3' HO3' ATF sing 99 n n 
C2' O2' ATF sing 100 n n 
C2' C1' ATF sing 101 n n 
C2' H2' ATF sing 102 n n 
O2' HO2' ATF sing 103 n n 
C1' N9 ATF sing 104 n n 
C1' H1' ATF sing 105 n n 
N9 C8 ATF sing 106 n y 
N9 C4 ATF sing 107 n y 
C8 N7 ATF doub 108 n y 
C8 H8 ATF sing 109 n n 
N7 C5 ATF sing 110 n y 
C5 C6 ATF sing 111 n y 
C5 C4 ATF doub 112 n y 
C6 N6 ATF sing 113 n n 
C6 N1 ATF doub 114 n y 
N6 HN61 ATF sing 115 n n 
N6 HN62 ATF sing 116 n n 
N1 C2 ATF sing 117 n y 
C2 N3 ATF doub 118 n y 
C2 H2 ATF sing 119 n n 
N3 C4 ATF sing 120 n y 
#
_atom_sites.entry_id                     1DVR 
_atom_sites.fract_transf_matrix[1][1]    0.020921 
_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]    0.013624 
_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]    0.008418 
_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 ATF A 1 230 230 ATF ATF . 
D 2 ATF B 1 230 230 ATF ATF . 
E 3 HOH A 1 231 301 HOH HOH . 
E 3 HOH A 2 232 302 HOH HOH . 
E 3 HOH A 3 233 303 HOH HOH . 
E 3 HOH A 4 234 304 HOH HOH . 
E 3 HOH A 5 235 305 HOH HOH . 
E 3 HOH A 6 236 306 HOH HOH . 
E 3 HOH A 7 237 307 HOH HOH . 
E 3 HOH A 8 238 308 HOH HOH . 
E 3 HOH A 9 239 309 HOH HOH . 
E 3 HOH A 10 240 310 HOH HOH . 
E 3 HOH A 11 241 311 HOH HOH . 
E 3 HOH A 12 242 312 HOH HOH . 
E 3 HOH A 13 243 313 HOH HOH . 
E 3 HOH A 14 244 314 HOH HOH . 
E 3 HOH A 15 245 315 HOH HOH . 
E 3 HOH A 16 246 316 HOH HOH . 
E 3 HOH A 17 247 317 HOH HOH . 
E 3 HOH A 18 248 318 HOH HOH . 
E 3 HOH A 19 249 319 HOH HOH . 
E 3 HOH A 20 250 320 HOH HOH . 
E 3 HOH A 21 251 321 HOH HOH . 
E 3 HOH A 22 252 322 HOH HOH . 
E 3 HOH A 23 253 323 HOH HOH . 
E 3 HOH A 24 254 324 HOH HOH . 
E 3 HOH A 25 255 325 HOH HOH . 
E 3 HOH A 26 256 328 HOH HOH . 
E 3 HOH A 27 257 329 HOH HOH . 
E 3 HOH A 28 258 330 HOH HOH . 
E 3 HOH A 29 259 331 HOH HOH . 
E 3 HOH A 30 260 332 HOH HOH . 
E 3 HOH A 31 261 333 HOH HOH . 
E 3 HOH A 32 262 334 HOH HOH . 
E 3 HOH A 33 263 335 HOH HOH . 
E 3 HOH A 34 264 338 HOH HOH . 
E 3 HOH A 35 265 339 HOH HOH . 
E 3 HOH A 36 266 340 HOH HOH . 
E 3 HOH A 37 267 341 HOH HOH . 
E 3 HOH A 38 268 342 HOH HOH . 
E 3 HOH A 39 269 343 HOH HOH . 
E 3 HOH A 40 270 344 HOH HOH . 
E 3 HOH A 41 271 345 HOH HOH . 
E 3 HOH A 42 272 346 HOH HOH . 
E 3 HOH A 43 273 347 HOH HOH . 
E 3 HOH A 44 274 348 HOH HOH . 
E 3 HOH A 45 275 349 HOH HOH . 
E 3 HOH A 46 276 350 HOH HOH . 
E 3 HOH A 47 277 351 HOH HOH . 
E 3 HOH A 48 278 352 HOH HOH . 
E 3 HOH A 49 279 353 HOH HOH . 
E 3 HOH A 50 280 354 HOH HOH . 
E 3 HOH A 51 281 355 HOH HOH . 
E 3 HOH A 52 282 356 HOH HOH . 
E 3 HOH A 53 283 357 HOH HOH . 
E 3 HOH A 54 284 358 HOH HOH . 
E 3 HOH A 55 285 359 HOH HOH . 
E 3 HOH A 56 286 360 HOH HOH . 
E 3 HOH A 57 287 361 HOH HOH . 
E 3 HOH A 58 288 362 HOH HOH . 
E 3 HOH A 59 289 363 HOH HOH . 
E 3 HOH A 60 290 364 HOH HOH . 
E 3 HOH A 61 291 365 HOH HOH . 
E 3 HOH A 62 292 366 HOH HOH . 
E 3 HOH A 63 293 367 HOH HOH . 
E 3 HOH A 64 294 368 HOH HOH . 
E 3 HOH A 65 295 369 HOH HOH . 
E 3 HOH A 66 296 370 HOH HOH . 
E 3 HOH A 67 297 371 HOH HOH . 
E 3 HOH A 68 298 372 HOH HOH . 
E 3 HOH A 69 299 373 HOH HOH . 
E 3 HOH A 70 300 374 HOH HOH . 
E 3 HOH A 71 301 375 HOH HOH . 
E 3 HOH A 72 302 376 HOH HOH . 
E 3 HOH A 73 303 377 HOH HOH . 
E 3 HOH A 74 304 378 HOH HOH . 
E 3 HOH A 75 305 379 HOH HOH . 
E 3 HOH A 76 306 380 HOH HOH . 
E 3 HOH A 77 307 381 HOH HOH . 
E 3 HOH A 78 308 382 HOH HOH . 
E 3 HOH A 79 309 383 HOH HOH . 
E 3 HOH A 80 310 384 HOH HOH . 
E 3 HOH A 81 311 385 HOH HOH . 
E 3 HOH A 82 312 386 HOH HOH . 
E 3 HOH A 83 313 387 HOH HOH . 
E 3 HOH A 84 314 360 HOH HOH . 
F 3 HOH B 1 231 326 HOH HOH . 
F 3 HOH B 2 232 327 HOH HOH . 
F 3 HOH B 3 233 336 HOH HOH . 
F 3 HOH B 4 234 337 HOH HOH . 
F 3 HOH B 5 235 301 HOH HOH . 
F 3 HOH B 6 236 302 HOH HOH . 
F 3 HOH B 7 237 303 HOH HOH . 
F 3 HOH B 8 238 304 HOH HOH . 
F 3 HOH B 9 239 305 HOH HOH . 
F 3 HOH B 10 240 306 HOH HOH . 
F 3 HOH B 11 241 307 HOH HOH . 
F 3 HOH B 12 242 308 HOH HOH . 
F 3 HOH B 13 243 309 HOH HOH . 
F 3 HOH B 14 244 310 HOH HOH . 
F 3 HOH B 15 245 311 HOH HOH . 
F 3 HOH B 16 246 312 HOH HOH . 
F 3 HOH B 17 247 313 HOH HOH . 
F 3 HOH B 18 248 314 HOH HOH . 
F 3 HOH B 19 249 315 HOH HOH . 
F 3 HOH B 20 250 316 HOH HOH . 
F 3 HOH B 21 251 317 HOH HOH . 
F 3 HOH B 22 252 318 HOH HOH . 
F 3 HOH B 23 253 319 HOH HOH . 
F 3 HOH B 24 254 320 HOH HOH . 
F 3 HOH B 25 255 321 HOH HOH . 
F 3 HOH B 26 256 322 HOH HOH . 
F 3 HOH B 27 257 323 HOH HOH . 
F 3 HOH B 28 258 324 HOH HOH . 
F 3 HOH B 29 259 325 HOH HOH . 
F 3 HOH B 30 260 326 HOH HOH . 
F 3 HOH B 31 261 327 HOH HOH . 
F 3 HOH B 32 262 328 HOH HOH . 
F 3 HOH B 33 263 329 HOH HOH . 
F 3 HOH B 34 264 330 HOH HOH . 
F 3 HOH B 35 265 331 HOH HOH . 
F 3 HOH B 36 266 332 HOH HOH . 
F 3 HOH B 37 267 333 HOH HOH . 
F 3 HOH B 38 268 334 HOH HOH . 
F 3 HOH B 39 269 335 HOH HOH . 
F 3 HOH B 40 270 336 HOH HOH . 
F 3 HOH B 41 271 337 HOH HOH . 
F 3 HOH B 42 272 338 HOH HOH . 
F 3 HOH B 43 273 339 HOH HOH . 
F 3 HOH B 44 274 340 HOH HOH . 
F 3 HOH B 45 275 341 HOH HOH . 
F 3 HOH B 46 276 342 HOH HOH . 
F 3 HOH B 47 277 343 HOH HOH . 
F 3 HOH B 48 278 344 HOH HOH . 
F 3 HOH B 49 279 345 HOH HOH . 
F 3 HOH B 50 280 346 HOH HOH . 
F 3 HOH B 51 281 347 HOH HOH . 
F 3 HOH B 52 282 348 HOH HOH . 
F 3 HOH B 53 283 349 HOH HOH . 
F 3 HOH B 54 284 350 HOH HOH . 
F 3 HOH B 55 285 351 HOH HOH . 
F 3 HOH B 56 286 352 HOH HOH . 
F 3 HOH B 57 287 353 HOH HOH . 
F 3 HOH B 58 288 354 HOH HOH . 
F 3 HOH B 59 289 355 HOH HOH . 
F 3 HOH B 60 290 356 HOH HOH . 
F 3 HOH B 61 291 357 HOH HOH . 
F 3 HOH B 62 292 358 HOH HOH . 
F 3 HOH B 63 293 359 HOH HOH . 
F 3 HOH B 64 294 361 HOH HOH . 
F 3 HOH B 65 295 362 HOH HOH . 
F 3 HOH B 66 296 363 HOH HOH . 
F 3 HOH B 67 297 364 HOH HOH . 
F 3 HOH B 68 298 365 HOH HOH . 
F 3 HOH B 69 299 366 HOH HOH . 
F 3 HOH B 70 300 367 HOH HOH . 
F 3 HOH B 71 301 368 HOH HOH . 
F 3 HOH B 72 302 369 HOH HOH . 
F 3 HOH B 73 303 370 HOH HOH . 
F 3 HOH B 74 304 371 HOH HOH . 
F 3 HOH B 75 305 372 HOH HOH . 
F 3 HOH B 76 306 373 HOH HOH . 
F 3 HOH B 77 307 374 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 P PG ATF . . . C 2 23.091 43.12 -14.689 1 15.7 ? PG ATF 230 A 1 
HETATM 2 O O1G ATF . . . C 2 24.265 42.69 -13.893 1 24.15 ? O1G ATF 230 A 1 
HETATM 3 O O2G ATF . . . C 2 21.878 42.289 -14.624 1 10.2 ? O2G ATF 230 A 1 
HETATM 4 O O3G ATF . . . C 2 22.679 44.505 -14.051 1 18.65 ? O3G ATF 230 A 1 
HETATM 5 P PB ATF . . . C 2 23.05 44.058 -17.677 1 8.41 ? PB ATF 230 A 1 
HETATM 6 O O1B ATF . . . C 2 21.608 44.067 -17.688 1 8.49 ? O1B ATF 230 A 1 
HETATM 7 O O2B ATF . . . C 2 23.571 45.446 -17.893 1 3.7 ? O2B ATF 230 A 1 
HETATM 8 C C3B ATF . . . C 2 23.744 43.132 -16.335 1 15.35 ? C3B ATF 230 A 1 
HETATM 9 F F1B ATF . . . C 2 23.977 41.829 -16.755 1 24.86 ? F1B ATF 230 A 1 
HETATM 10 F F2B ATF . . . C 2 25.109 43.235 -16.263 1 13.18 ? F2B ATF 230 A 1 
HETATM 11 P PA ATF . . . C 2 23.272 42.149 -20.024 1 11.32 ? PA ATF 230 A 1 
HETATM 12 O O1A ATF . . . C 2 22.566 40.918 -19.612 1 14.6 ? O1A ATF 230 A 1 
HETATM 13 O O2A ATF . . . C 2 24.465 41.841 -20.798 1 22.55 ? O2A ATF 230 A 1 
HETATM 14 O O3A ATF . . . C 2 23.711 43.352 -19.028 1 13.46 ? O3A ATF 230 A 1 
HETATM 15 O O5' ATF . . . C 2 22.352 42.928 -21.05 1 13.98 ? O5' ATF 230 A 1 
HETATM 16 C C5' ATF . . . C 2 20.992 43.226 -20.774 1 9.69 ? C5' ATF 230 A 1 
HETATM 17 C C4' ATF . . . C 2 20.129 42.705 -21.846 1 5.69 ? C4' ATF 230 A 1 
HETATM 18 O O4' ATF . . . C 2 20.259 43.523 -22.96 1 8.65 ? O4' ATF 230 A 1 
HETATM 19 C C3' ATF . . . C 2 20.453 41.343 -22.399 1 4.88 ? C3' ATF 230 A 1 
HETATM 20 O O3' ATF . . . C 2 19.224 40.93 -22.917 1 7.26 ? O3' ATF 230 A 1 
HETATM 21 C C2' ATF . . . C 2 21.496 41.562 -23.581 1 9.53 ? C2' ATF 230 A 1 
HETATM 22 O O2' ATF . . . C 2 21.177 40.766 -24.739 1 13.48 ? O2' ATF 230 A 1 
HETATM 23 C C1' ATF . . . C 2 21.254 42.982 -23.869 1 12.59 ? C1' ATF 230 A 1 
HETATM 24 N N9 ATF . . . C 2 22.094 43.861 -24.704 1 16.49 ? N9 ATF 230 A 1 
HETATM 25 C C8 ATF . . . C 2 23.279 44.368 -24.181 1 7.77 ? C8 ATF 230 A 1 
HETATM 26 N N7 ATF . . . C 2 23.732 45.355 -24.888 1 7.22 ? N7 ATF 230 A 1 
HETATM 27 C C5 ATF . . . C 2 22.863 45.568 -25.932 1 10.36 ? C5 ATF 230 A 1 
HETATM 28 C C6 ATF . . . C 2 22.8 46.525 -26.975 1 16.36 ? C6 ATF 230 A 1 
HETATM 29 N N6 ATF . . . C 2 23.702 47.506 -26.967 1 8.1 ? N6 ATF 230 A 1 
HETATM 30 N N1 ATF . . . C 2 21.795 46.473 -27.903 1 10.57 ? N1 ATF 230 A 1 
HETATM 31 C C2 ATF . . . C 2 20.891 45.508 -27.78 1 6.83 ? C2 ATF 230 A 1 
HETATM 32 N N3 ATF . . . C 2 20.823 44.552 -26.82 1 16.05 ? N3 ATF 230 A 1 
HETATM 33 C C4 ATF . . . C 2 21.821 44.593 -25.875 1 13.31 ? C4 ATF 230 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           277 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           33 
#