0.015992 0.009233 0.000000 0.000000 0.018465 0.000000 0.000000 0.000000 0.012169 0.00000 0.00000 0.00000 3.54356 2.42580 25.62398 1.50364 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.90428 4.07044 12.99538 1.63651 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 0.51345 0.48472 24.73122 6.32584 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.01032 2.96436 19.97189 1.75589 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.49882 3.47563 15.80542 1.70748 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 9.55732 6.39887 1.23737 29.19336 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 0000-0001-6994-2416 Shaqra, A.M. 0000-0002-4771-804X Kaur, J. 0000-0003-2270-6613 Schiffer, C.A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.000 90.000 120.000 62.533 62.533 82.178 278294.567 C30 H40 F2 N2 O8 S 626.709 (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(2S,3R)-1-(3,5-difluorophenyl)-3-hydroxy-4-({4-[(1R)-1-hydroxyethyl]benzene-1-sulfonyl}[(2S)-2-methylbutyl]amino)butan-2-yl]carbamate non-polymer C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C4 H10 O3 106.120 DI(HYDROXYETHYL)ETHER non-polymer C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking Y 1 N C Y 2 N C N 3 N C N 4 S C Y 5 N C Y 6 N C Y 7 N C Y 8 N C N 9 N C N 10 N C N 11 R C N 12 S C N 13 N C N 14 R C N 15 N C N 16 R C N 17 N C N 18 N C Y 19 N C Y 20 N C Y 21 N C Y 22 N C N 23 N C N 24 N C Y 25 N C Y 26 N C N 27 N C N 28 S C N 29 N C N 30 R C N 31 N F N 32 N F N 33 N N N 34 N N N 35 N O N 36 N O N 37 N O N 38 N O N 39 N O N 40 N O N 41 N O N 42 N O N 43 N S N 44 N H N 45 N H N 46 N H N 47 N H N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N H N 83 N H N 84 N N N 85 S C N 86 N C N 87 N O N 88 N C N 89 N O N 90 N H N 91 N H N 92 N H N 93 N H N 94 N H N 95 N H N 96 N H N 97 N N N 98 S C N 99 N C N 100 N O N 101 N C N 102 N C N 103 N C N 104 N N N 105 N C N 106 N N N 107 N N N 108 N O N 109 N H N 110 N H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N N N 125 S C N 126 N C N 127 N O N 128 N C N 129 N C N 130 N O N 131 N N N 132 N O N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N N N 142 S C N 143 N C N 144 N O N 145 N C N 146 N C N 147 N O N 148 N O N 149 N O N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N N N 158 R C N 159 N C N 160 N O N 161 N C N 162 N S N 163 N O N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N H N 170 N H N 171 N N N 172 S C N 173 N C N 174 N O N 175 N C N 176 N C N 177 N C N 178 N O N 179 N N N 180 N O N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N N N 192 S C N 193 N C N 194 N O N 195 N C N 196 N C N 197 N C N 198 N O N 199 N O N 200 N O N 201 N H N 202 N H N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N N N 211 N C N 212 N C N 213 N O N 214 N O N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N C N 221 N O N 222 N C N 223 N O N 224 N C N 225 N O N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N N N 235 S C N 236 N C N 237 N O N 238 N C Y 239 N C Y 240 N N Y 241 N C Y 242 N C Y 243 N N N 244 N O N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N O N 256 N H N 257 N H N 258 N N N 259 S C N 260 N C N 261 N O N 262 S C N 263 N C N 264 N C N 265 N C N 266 N O N 267 N H N 268 N H N 269 N H N 270 N H N 271 N H N 272 N H N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N H N 279 N H N 280 N N N 281 S C N 282 N C N 283 N O N 284 N C N 285 N C N 286 N C N 287 N C N 288 N O N 289 N H N 290 N H N 291 N H N 292 N H N 293 N H N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N H N 302 N N N 303 S C N 304 N C N 305 N O N 306 N C N 307 N C N 308 N C N 309 N C N 310 N N N 311 N O N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N H N 324 N H N 325 N H N 326 N H N 327 N N N 328 S C N 329 N C N 330 N O N 331 N C N 332 N C N 333 N S N 334 N C N 335 N O N 336 N H N 337 N H N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N C N 348 N O N 349 N C N 350 N O N 351 N C N 352 N C N 353 N O N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 N H N 362 N H N 363 N H N 364 N N N 365 S C N 366 N C N 367 N O N 368 N C Y 369 N C Y 370 N C Y 371 N C Y 372 N C Y 373 N C Y 374 N C N 375 N O N 376 N H N 377 N H N 378 N H N 379 N H N 380 N H N 381 N H N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N N N 388 S C N 389 N C N 390 N O N 391 N C N 392 N C N 393 N C N 394 N O N 395 N H N 396 N H N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N N N 405 S C N 406 N C N 407 N O N 408 R C N 409 N O N 410 N C N 411 N O N 412 N H N 413 N H N 414 N H N 415 N H N 416 N H N 417 N H N 418 N H N 419 N H N 420 N H N 421 N N N 422 S C N 423 N C N 424 N O N 425 N C Y 426 N C Y 427 N C Y 428 N C Y 429 N N Y 430 N C Y 431 N C Y 432 N C Y 433 N C Y 434 N C N 435 N O N 436 N H N 437 N H N 438 N H N 439 N H N 440 N H N 441 N H N 442 N H N 443 N H N 444 N H N 445 N H N 446 N H N 447 N H N 448 N N N 449 S C N 450 N C N 451 N O N 452 N C Y 453 N C Y 454 N C Y 455 N C Y 456 N C Y 457 N C Y 458 N C N 459 N O N 460 N O N 461 N H N 462 N H N 463 N H N 464 N H N 465 N H N 466 N H N 467 N H N 468 N H N 469 N H N 470 N H N 471 N H N 472 N N N 473 S C N 474 N C N 475 N O N 476 N C N 477 N C N 478 N C N 479 N O N 480 N H N 481 N H N 482 N H N 483 N H N 484 N H N 485 N H N 486 N H N 487 N H N 488 N H N 489 N H N 490 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing Y 19 N doub Y 20 N sing N 21 N sing Y 22 N sing Y 23 N doub Y 24 N sing N 25 N sing Y 26 N doub N 27 N sing N 28 N sing N 29 N sing N 30 N sing Y 31 N doub Y 32 N sing Y 33 N sing Y 34 N doub N 35 N sing Y 36 N sing Y 37 N doub N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N doub N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N doub N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N doub N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N doub N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N doub N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N doub N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N doub N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N doub N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N doub N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N doub N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N doub N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N doub N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N doub N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N doub N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N doub N 235 N sing N 236 N sing N 237 N sing N 238 N sing Y 239 N sing Y 240 N doub Y 241 N doub N 242 N sing Y 243 N sing N 244 N sing Y 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N doub N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N doub N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N sing N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N doub N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N doub N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N doub N 359 N sing N 360 N sing N 361 N sing N 362 N sing Y 363 N doub Y 364 N sing Y 365 N sing N 366 N sing Y 367 N doub N 368 N sing Y 369 N doub N 370 N sing Y 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing N 376 N sing N 377 N sing N 378 N sing N 379 N sing N 380 N sing N 381 N doub N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing N 388 N sing N 389 N sing N 390 N sing N 391 N sing N 392 N sing N 393 N sing N 394 N sing N 395 N sing N 396 N sing N 397 N sing N 398 N doub N 399 N sing N 400 N sing N 401 N sing N 402 N sing N 403 N sing N 404 N sing N 405 N sing N 406 N sing N 407 N sing N 408 N sing N 409 N sing N 410 N sing N 411 N sing N 412 N sing N 413 N sing N 414 N doub N 415 N sing N 416 N sing N 417 N sing N 418 N sing Y 419 N doub Y 420 N sing Y 421 N sing N 422 N sing Y 423 N doub Y 424 N sing Y 425 N sing N 426 N sing Y 427 N sing Y 428 N doub N 429 N sing Y 430 N doub N 431 N sing Y 432 N sing N 433 N sing N 434 N sing N 435 N sing N 436 N sing N 437 N sing N 438 N sing N 439 N sing N 440 N sing N 441 N sing N 442 N doub N 443 N sing N 444 N sing N 445 N sing N 446 N sing Y 447 N doub Y 448 N sing Y 449 N sing N 450 N sing Y 451 N doub N 452 N sing Y 453 N doub N 454 N sing Y 455 N sing N 456 N sing N 457 N sing N 458 N sing N 459 N sing N 460 N sing N 461 N sing N 462 N sing N 463 N sing N 464 N sing N 465 N sing N 466 N doub N 467 N sing N 468 N sing N 469 N sing N 470 N sing N 471 N sing N 472 N sing N 473 N sing N 474 N sing N 475 N sing N 476 N sing N 477 N sing FR Eur.J.Med.Chem. EJMCA5 0493 0223-5234 304 118510 118510 10.1016/j.ejmech.2025.118510 41448052 Fluorinated HIV-1 protease inhibitors containing chiral hydroxyethylbenzene and indanol as P2' ligands with potent activity against drug-resistant variants. 2025 10.2210/pdb9q5d/pdb pdb_00009q5d 100 1 N PIXEL 2024-07-20 DECTRIS EIGER X 16M SINGLE WAVELENGTH M x-ray 1 0.9 1.0 17-ID-1 NSLS-II 0.9 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 10831.833 Protease 3.4.23.16 2 man polymer 626.709 (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(2S,3R)-1-(3,5-difluorophenyl)-3-hydroxy-4-({4-[(1R)-1-hydroxyethyl]benzene-1-sulfonyl}[(2S)-2-methylbutyl]amino)butan-2-yl]carbamate 1 syn non-polymer 106.120 DI(HYDROXYETHYL)ETHER 1 syn non-polymer 92.094 GLYCEROL 1 syn non-polymer 18.015 water 169 nat water PR,Retropepsin no no PQITLWKRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNF PQITLWKRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNF B,A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n NL4-3 sample 1 99 gag-pol 11676 Human immunodeficiency virus 1 866768 Escherichia coli 'BL21-Gold(DE3)pLysS AG' Biological sequence 1 2.14 42.55 VAPOR DIFFUSION, HANGING DROP 5.5 23-24% (w/v) Ammonium Sulfate, 0.1M Bis-Tris-Methane-HCl Buffer pH 5.5 293 citation citation repository Initial release Database references Database references 1 0 2025-12-24 1 1 2025-12-31 1 2 2026-01-07 _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.pdbx_database_id_DOI _citation.title _citation.year _citation.page_last _citation.pdbx_database_id_PubMed _citation.title _citation.year Other private celia.schiffer@umassmed.edu 0000-0003-2270-6613 Celia Schiffer A principal investigator/group leader N RCSB N RCSB 2025-08-20 REL REL 1 B O HOH 290 6.51 1 B O HOH 291 7.17 1 B O HOH 292 7.22 1 B O HOH 293 7.36 1 B O HOH 294 8.56 1 B O HOH 295 10.52 1 A O HOH 273 6.28 1 A O HOH 274 9.20 A1COE A1COE SUBJECT OF INVESTIGATION A1COE (3R,3aS,6aR)-hexahydrofuro[2,3-b]furan-3-yl [(2S,3R)-1-(3,5-difluorophenyl)-3-hydroxy-4-({4-[(1R)-1-hydroxyethyl]benzene-1-sulfonyl}[(2S)-2-methylbutyl]amino)butan-2-yl]carbamate PEG DI(HYDROXYETHYL)ETHER GOL GLYCEROL HOH water Y N 6DGY PDB experimental model LIG 101 2 A1COE A1COE 101 B PEG 102 3 PEG PEG 102 B GOL 101 4 GOL GOL 101 A HOH 25 5 HOH HOH 201 B HOH 7 5 HOH HOH 202 B HOH 92 5 HOH HOH 203 B HOH 5 5 HOH HOH 204 B HOH 180 5 HOH HOH 205 B HOH 2 5 HOH HOH 206 B HOH 28 5 HOH HOH 207 B HOH 1 5 HOH HOH 208 B HOH 156 5 HOH HOH 209 B HOH 81 5 HOH HOH 210 B HOH 42 5 HOH HOH 211 B HOH 124 5 HOH HOH 212 B HOH 116 5 HOH HOH 213 B HOH 31 5 HOH HOH 214 B HOH 98 5 HOH HOH 215 B HOH 15 5 HOH HOH 216 B HOH 91 5 HOH HOH 217 B HOH 34 5 HOH HOH 218 B HOH 61 5 HOH HOH 219 B HOH 90 5 HOH HOH 220 B HOH 158 5 HOH HOH 221 B HOH 167 5 HOH HOH 222 B HOH 174 5 HOH HOH 223 B HOH 11 5 HOH HOH 224 B HOH 30 5 HOH HOH 225 B HOH 14 5 HOH HOH 226 B HOH 41 5 HOH HOH 227 B HOH 65 5 HOH HOH 228 B HOH 51 5 HOH HOH 229 B HOH 48 5 HOH HOH 230 B HOH 46 5 HOH HOH 231 B HOH 40 5 HOH HOH 232 B HOH 113 5 HOH HOH 233 B HOH 66 5 HOH HOH 234 B HOH 20 5 HOH HOH 235 B HOH 120 5 HOH HOH 236 B HOH 148 5 HOH HOH 237 B HOH 168 5 HOH HOH 238 B HOH 119 5 HOH HOH 239 B HOH 38 5 HOH HOH 240 B HOH 117 5 HOH HOH 241 B HOH 45 5 HOH HOH 242 B HOH 101 5 HOH HOH 243 B HOH 85 5 HOH HOH 244 B HOH 47 5 HOH HOH 245 B HOH 111 5 HOH HOH 246 B HOH 123 5 HOH HOH 247 B HOH 19 5 HOH HOH 248 B HOH 68 5 HOH HOH 249 B HOH 121 5 HOH HOH 250 B HOH 108 5 HOH HOH 251 B HOH 122 5 HOH HOH 252 B HOH 157 5 HOH HOH 253 B HOH 86 5 HOH HOH 254 B HOH 74 5 HOH HOH 255 B HOH 87 5 HOH HOH 256 B HOH 63 5 HOH HOH 257 B HOH 118 5 HOH HOH 258 B HOH 39 5 HOH HOH 259 B HOH 71 5 HOH HOH 260 B HOH 70 5 HOH HOH 261 B HOH 106 5 HOH HOH 262 B HOH 107 5 HOH HOH 263 B HOH 77 5 HOH HOH 264 B HOH 125 5 HOH HOH 265 B HOH 44 5 HOH HOH 266 B HOH 175 5 HOH HOH 267 B HOH 72 5 HOH HOH 268 B HOH 78 5 HOH HOH 269 B HOH 161 5 HOH HOH 270 B HOH 59 5 HOH HOH 271 B HOH 176 5 HOH HOH 272 B HOH 126 5 HOH HOH 273 B HOH 69 5 HOH HOH 274 B HOH 103 5 HOH HOH 275 B HOH 52 5 HOH HOH 276 B HOH 110 5 HOH HOH 277 B HOH 112 5 HOH HOH 278 B HOH 54 5 HOH HOH 279 B HOH 166 5 HOH HOH 280 B HOH 95 5 HOH HOH 281 B HOH 179 5 HOH HOH 282 B HOH 171 5 HOH HOH 283 B HOH 114 5 HOH HOH 284 B HOH 128 5 HOH HOH 285 B HOH 173 5 HOH HOH 286 B HOH 155 5 HOH HOH 287 B HOH 178 5 HOH HOH 288 B HOH 131 5 HOH HOH 289 B HOH 172 5 HOH HOH 290 B HOH 109 5 HOH HOH 291 B HOH 150 5 HOH HOH 292 B HOH 129 5 HOH HOH 293 B HOH 151 5 HOH HOH 294 B HOH 154 5 HOH HOH 295 B HOH 8 5 HOH HOH 201 A HOH 9 5 HOH HOH 202 A HOH 93 5 HOH HOH 203 A HOH 4 5 HOH HOH 204 A HOH 100 5 HOH HOH 205 A HOH 35 5 HOH HOH 206 A HOH 21 5 HOH HOH 207 A HOH 26 5 HOH HOH 208 A HOH 89 5 HOH HOH 209 A HOH 22 5 HOH HOH 210 A HOH 6 5 HOH HOH 211 A HOH 67 5 HOH HOH 212 A HOH 165 5 HOH HOH 213 A HOH 49 5 HOH HOH 214 A HOH 29 5 HOH HOH 215 A HOH 12 5 HOH HOH 216 A HOH 27 5 HOH HOH 217 A HOH 99 5 HOH HOH 218 A HOH 13 5 HOH HOH 219 A HOH 32 5 HOH HOH 220 A HOH 33 5 HOH HOH 221 A HOH 10 5 HOH HOH 222 A HOH 24 5 HOH HOH 223 A HOH 53 5 HOH HOH 224 A HOH 50 5 HOH HOH 225 A HOH 56 5 HOH HOH 226 A HOH 23 5 HOH HOH 227 A HOH 55 5 HOH HOH 228 A HOH 3 5 HOH HOH 229 A HOH 17 5 HOH HOH 230 A HOH 82 5 HOH HOH 231 A HOH 37 5 HOH HOH 232 A HOH 80 5 HOH HOH 233 A HOH 147 5 HOH HOH 234 A HOH 105 5 HOH HOH 235 A HOH 64 5 HOH HOH 236 A HOH 169 5 HOH HOH 237 A HOH 43 5 HOH HOH 238 A HOH 137 5 HOH HOH 239 A HOH 36 5 HOH HOH 240 A HOH 138 5 HOH HOH 241 A HOH 83 5 HOH HOH 242 A HOH 18 5 HOH HOH 243 A HOH 79 5 HOH HOH 244 A HOH 163 5 HOH HOH 245 A HOH 133 5 HOH HOH 246 A HOH 94 5 HOH HOH 247 A HOH 136 5 HOH HOH 248 A HOH 141 5 HOH HOH 249 A HOH 96 5 HOH HOH 250 A HOH 164 5 HOH HOH 251 A HOH 134 5 HOH HOH 252 A HOH 139 5 HOH HOH 253 A HOH 149 5 HOH HOH 254 A HOH 60 5 HOH HOH 255 A HOH 142 5 HOH HOH 256 A HOH 73 5 HOH HOH 257 A HOH 145 5 HOH HOH 258 A HOH 84 5 HOH HOH 259 A HOH 88 5 HOH HOH 260 A HOH 140 5 HOH HOH 261 A HOH 127 5 HOH HOH 262 A HOH 132 5 HOH HOH 263 A HOH 104 5 HOH HOH 264 A HOH 170 5 HOH HOH 265 A HOH 102 5 HOH HOH 266 A HOH 162 5 HOH HOH 267 A HOH 130 5 HOH HOH 268 A HOH 144 5 HOH HOH 269 A HOH 62 5 HOH HOH 270 A HOH 97 5 HOH HOH 271 A HOH 177 5 HOH HOH 272 A HOH 143 5 HOH HOH 273 A HOH 146 5 HOH HOH 274 A PRO 1 n 1 PRO 1 B GLN 2 n 2 GLN 2 B ILE 3 n 3 ILE 3 B THR 4 n 4 THR 4 B LEU 5 n 5 LEU 5 B TRP 6 n 6 TRP 6 B LYS 7 n 7 LYS 7 B ARG 8 n 8 ARG 8 B PRO 9 n 9 PRO 9 B LEU 10 n 10 LEU 10 B VAL 11 n 11 VAL 11 B THR 12 n 12 THR 12 B ILE 13 n 13 ILE 13 B LYS 14 n 14 LYS 14 B ILE 15 n 15 ILE 15 B GLY 16 n 16 GLY 16 B GLY 17 n 17 GLY 17 B GLN 18 n 18 GLN 18 B LEU 19 n 19 LEU 19 B LYS 20 n 20 LYS 20 B GLU 21 n 21 GLU 21 B ALA 22 n 22 ALA 22 B LEU 23 n 23 LEU 23 B LEU 24 n 24 LEU 24 B ASP 25 n 25 ASP 25 B THR 26 n 26 THR 26 B GLY 27 n 27 GLY 27 B ALA 28 n 28 ALA 28 B ASP 29 n 29 ASP 29 B ASP 30 n 30 ASP 30 B THR 31 n 31 THR 31 B VAL 32 n 32 VAL 32 B LEU 33 n 33 LEU 33 B GLU 34 n 34 GLU 34 B GLU 35 n 35 GLU 35 B MET 36 n 36 MET 36 B ASN 37 n 37 ASN 37 B LEU 38 n 38 LEU 38 B PRO 39 n 39 PRO 39 B GLY 40 n 40 GLY 40 B ARG 41 n 41 ARG 41 B TRP 42 n 42 TRP 42 B LYS 43 n 43 LYS 43 B PRO 44 n 44 PRO 44 B LYS 45 n 45 LYS 45 B MET 46 n 46 MET 46 B ILE 47 n 47 ILE 47 B GLY 48 n 48 GLY 48 B GLY 49 n 49 GLY 49 B ILE 50 n 50 ILE 50 B GLY 51 n 51 GLY 51 B GLY 52 n 52 GLY 52 B PHE 53 n 53 PHE 53 B ILE 54 n 54 ILE 54 B LYS 55 n 55 LYS 55 B VAL 56 n 56 VAL 56 B ARG 57 n 57 ARG 57 B GLN 58 n 58 GLN 58 B TYR 59 n 59 TYR 59 B ASP 60 n 60 ASP 60 B GLN 61 n 61 GLN 61 B ILE 62 n 62 ILE 62 B LEU 63 n 63 LEU 63 B ILE 64 n 64 ILE 64 B GLU 65 n 65 GLU 65 B ILE 66 n 66 ILE 66 B CYS 67 n 67 CYS 67 B GLY 68 n 68 GLY 68 B HIS 69 n 69 HIS 69 B LYS 70 n 70 LYS 70 B ALA 71 n 71 ALA 71 B ILE 72 n 72 ILE 72 B GLY 73 n 73 GLY 73 B THR 74 n 74 THR 74 B VAL 75 n 75 VAL 75 B LEU 76 n 76 LEU 76 B VAL 77 n 77 VAL 77 B GLY 78 n 78 GLY 78 B PRO 79 n 79 PRO 79 B THR 80 n 80 THR 80 B PRO 81 n 81 PRO 81 B VAL 82 n 82 VAL 82 B ASN 83 n 83 ASN 83 B ILE 84 n 84 ILE 84 B ILE 85 n 85 ILE 85 B GLY 86 n 86 GLY 86 B ARG 87 n 87 ARG 87 B ASN 88 n 88 ASN 88 B LEU 89 n 89 LEU 89 B LEU 90 n 90 LEU 90 B THR 91 n 91 THR 91 B GLN 92 n 92 GLN 92 B ILE 93 n 93 ILE 93 B GLY 94 n 94 GLY 94 B CYS 95 n 95 CYS 95 B THR 96 n 96 THR 96 B LEU 97 n 97 LEU 97 B ASN 98 n 98 ASN 98 B PHE 99 n 99 PHE 99 B PRO 1 n 1 PRO 1 A GLN 2 n 2 GLN 2 A ILE 3 n 3 ILE 3 A THR 4 n 4 THR 4 A LEU 5 n 5 LEU 5 A TRP 6 n 6 TRP 6 A LYS 7 n 7 LYS 7 A ARG 8 n 8 ARG 8 A PRO 9 n 9 PRO 9 A LEU 10 n 10 LEU 10 A VAL 11 n 11 VAL 11 A THR 12 n 12 THR 12 A ILE 13 n 13 ILE 13 A LYS 14 n 14 LYS 14 A ILE 15 n 15 ILE 15 A GLY 16 n 16 GLY 16 A GLY 17 n 17 GLY 17 A GLN 18 n 18 GLN 18 A LEU 19 n 19 LEU 19 A LYS 20 n 20 LYS 20 A GLU 21 n 21 GLU 21 A ALA 22 n 22 ALA 22 A LEU 23 n 23 LEU 23 A LEU 24 n 24 LEU 24 A ASP 25 n 25 ASP 25 A THR 26 n 26 THR 26 A GLY 27 n 27 GLY 27 A ALA 28 n 28 ALA 28 A ASP 29 n 29 ASP 29 A ASP 30 n 30 ASP 30 A THR 31 n 31 THR 31 A VAL 32 n 32 VAL 32 A LEU 33 n 33 LEU 33 A GLU 34 n 34 GLU 34 A GLU 35 n 35 GLU 35 A MET 36 n 36 MET 36 A ASN 37 n 37 ASN 37 A LEU 38 n 38 LEU 38 A PRO 39 n 39 PRO 39 A GLY 40 n 40 GLY 40 A ARG 41 n 41 ARG 41 A TRP 42 n 42 TRP 42 A LYS 43 n 43 LYS 43 A PRO 44 n 44 PRO 44 A LYS 45 n 45 LYS 45 A MET 46 n 46 MET 46 A ILE 47 n 47 ILE 47 A GLY 48 n 48 GLY 48 A GLY 49 n 49 GLY 49 A ILE 50 n 50 ILE 50 A GLY 51 n 51 GLY 51 A GLY 52 n 52 GLY 52 A PHE 53 n 53 PHE 53 A ILE 54 n 54 ILE 54 A LYS 55 n 55 LYS 55 A VAL 56 n 56 VAL 56 A ARG 57 n 57 ARG 57 A GLN 58 n 58 GLN 58 A TYR 59 n 59 TYR 59 A ASP 60 n 60 ASP 60 A GLN 61 n 61 GLN 61 A ILE 62 n 62 ILE 62 A LEU 63 n 63 LEU 63 A ILE 64 n 64 ILE 64 A GLU 65 n 65 GLU 65 A ILE 66 n 66 ILE 66 A CYS 67 n 67 CYS 67 A GLY 68 n 68 GLY 68 A HIS 69 n 69 HIS 69 A LYS 70 n 70 LYS 70 A ALA 71 n 71 ALA 71 A ILE 72 n 72 ILE 72 A GLY 73 n 73 GLY 73 A THR 74 n 74 THR 74 A VAL 75 n 75 VAL 75 A LEU 76 n 76 LEU 76 A VAL 77 n 77 VAL 77 A GLY 78 n 78 GLY 78 A PRO 79 n 79 PRO 79 A THR 80 n 80 THR 80 A PRO 81 n 81 PRO 81 A VAL 82 n 82 VAL 82 A ASN 83 n 83 ASN 83 A ILE 84 n 84 ILE 84 A ILE 85 n 85 ILE 85 A GLY 86 n 86 GLY 86 A ARG 87 n 87 ARG 87 A ASN 88 n 88 ASN 88 A LEU 89 n 89 LEU 89 A LEU 90 n 90 LEU 90 A THR 91 n 91 THR 91 A GLN 92 n 92 GLN 92 A ILE 93 n 93 ILE 93 A GLY 94 n 94 GLY 94 A CYS 95 n 95 CYS 95 A THR 96 n 96 THR 96 A LEU 97 n 97 LEU 97 A ASN 98 n 98 ASN 98 A PHE 99 n 99 PHE 99 A 2.19679627443 -0.119024004419 -1.46183663696 1.17311245956 0.162140008751 1.39917720471 0.0227838491425 -0.0550010208526 0.218181505015 -0.123741336823 0.0752260545525 -0.0891078673337 -0.0206151990682 0.0236775759064 -0.0864658810087 0.131920231854 0.0233511361162 -0.0116174566746 0.113639740742 0.00777391412256 0.148810484805 refined -11.6112195933 -20.1356019923 5.0597952572 X-RAY DIFFRACTION B 1 A 1 S 180 F X-RAY DIFFRACTION 1 all author_and_software_defined_assembly PISA 2 dimeric gel filtration 5470 -26 8720 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 B N ILE 3 A N ILE 3 A O LEU 97 B O LEU 97 A O ASN 98 B O ASN 98 B N THR 96 A N THR 96 B N LEU 97 A N LEU 97 A O ILE 3 B O ILE 3 B N LYS 45 A N LYS 45 B O VAL 56 A O VAL 56 B N ARG 57 A N ARG 57 B O VAL 77 A O VAL 77 B O LEU 76 A O LEU 76 B N LEU 33 A N LEU 33 B N VAL 32 A N VAL 32 B O ILE 84 A O ILE 84 B O ILE 85 A O ILE 85 B N LEU 23 A N LEU 23 B O LYS 20 A O LYS 20 B N ILE 13 A N ILE 13 B N LYS 14 A N LYS 14 B O GLU 65 A O GLU 65 A N ILE 47 B N ILE 47 A O ILE 54 B O ILE 54 A N ARG 57 B N ARG 57 A O VAL 77 B O VAL 77 A O LEU 76 B O LEU 76 A N LEU 33 B N LEU 33 A N VAL 32 B N VAL 32 A O ILE 84 B O ILE 84 A O ILE 85 B O ILE 85 A N LEU 23 B N LEU 23 A O ALA 22 B O ALA 22 A N VAL 11 B N VAL 11 A N LYS 14 B N LYS 14 A O GLU 65 B O GLU 65 1 B CG LYS 7 A CG LYS 7 1 Y 1 B CD LYS 7 A CD LYS 7 1 Y 1 B CE LYS 7 A CE LYS 7 1 Y 1 B NZ LYS 7 A NZ LYS 7 1 Y 1 B CG ARG 41 A CG ARG 41 1 Y 1 B CD ARG 41 A CD ARG 41 1 Y 1 B NE ARG 41 A NE ARG 41 1 Y 1 B CZ ARG 41 A CZ ARG 41 1 Y 1 B NH1 ARG 41 A NH1 ARG 41 1 Y 1 B NH2 ARG 41 A NH2 ARG 41 1 Y 1 B CG LYS 45 A CG LYS 45 1 Y 1 B CD LYS 45 A CD LYS 45 1 Y 1 B CE LYS 45 A CE LYS 45 1 Y 1 B NZ LYS 45 A NZ LYS 45 1 Y 1 B CG1 ILE 66 A CG1 ILE 66 1 Y 1 B CG2 ILE 66 A CG2 ILE 66 1 Y 1 B CD1 ILE 66 A CD1 ILE 66 1 Y 1 A CG LYS 7 B CG LYS 7 1 Y 1 A CD LYS 7 B CD LYS 7 1 Y 1 A CE LYS 7 B CE LYS 7 1 Y 1 A NZ LYS 7 B NZ LYS 7 1 Y 1 A CG ARG 41 B CG ARG 41 1 Y 1 A CD ARG 41 B CD ARG 41 1 Y 1 A NE ARG 41 B NE ARG 41 1 Y 1 A CZ ARG 41 B CZ ARG 41 1 Y 1 A NH1 ARG 41 B NH1 ARG 41 1 Y 1 A NH2 ARG 41 B NH2 ARG 41 1 Y 1 A CG LYS 55 B CG LYS 55 1 Y 1 A CD LYS 55 B CD LYS 55 1 Y 1 A CE LYS 55 B CE LYS 55 1 Y 1 A NZ LYS 55 B NZ LYS 55 1 Y 1 B B O O HOH HOH 226 230 1.95 1 A A O O HOH HOH 231 260 1.95 1 A A O O HOH HOH 244 271 1.98 1 B B O O HOH HOH 251 263 2.02 1 A A O O HOH HOH 239 248 2.03 1 B B OD1 O ASP HOH 30 201 2.04 1 B A O O HOH HOH 243 266 2.06 1 B A O O HOH HOH 264 231 2.07 1 B B O O HOH HOH 211 246 2.07 1 B B O O HOH HOH 209 252 2.07 1 A A O O HOH HOH 212 220 2.10 1 A A O O HOH HOH 227 243 2.10 1 B B O O THR HOH 74 202 2.14 1 A A O O THR HOH 74 201 2.16 1 B B NZ O LYS HOH 20 203 2.16 1 B ARG 57 0.101 SIDE CHAIN 1 A ARG 57 0.094 SIDE CHAIN 29.76 0.2435 0.2105 0.2184 1.94 19.86 675 12865 13540 4.99 100.00 1 FREE R-VALUE 19.04 MOLECULAR REPLACEMENT 27.1988 0.9000 1.1000 GeoStd + Monomer Library + CDL v1.2 FLAT BULK SOLVENT MODEL 1.94 19.86 169 1714 56 0 1489 0.0031 1589 0.6389 2163 0.0492 260 0.0151 267 7.4342 222 d_2 B A ens_1 X-RAY DIFFRACTION Torsion NCS 0.931472617046 0.3334 0.2550 2.09 139 2578 94.88 0.3498 0.2468 2.30 129 2547 95.18 0.2723 0.2427 2.63 134 2573 95.05 0.2501 0.2160 3.31 132 2578 95.13 0.1992 0.1925 19.86 141 2589 94.84 1.94 19.86 9Q5D 13540 1.000 0.023 1 20.4 2 100 0.145 1.94 2.01 4.9 1362 0.938 1 2.0 100 refinement PHENIX 1.20.1_4487 data reduction XDS data scaling XDS phasing PHASER model building Coot 169 hexagonal P 61 P 61 x,y,z x-y,x,z+1/6 y,-x+y,z+5/6 -y,x-y,z+1/3 -x+y,-x,z+2/3 -x,-y,z+1/2 N Crystal Structure of WT HIV-1 Protease (NL4-3) with Inhibitor J02-37 1 N N 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N B GLY 86 A GLY 86 HELX_P B THR 91 A THR 91 1 AA1 6 A GLY 86 B GLY 86 HELX_P A THR 91 B THR 91 1 AA2 6 VIRAL PROTEIN, HYDROLASE/INHIBITOR HIV-1 Protease, wild-type HIV-1 Protease, Protease-Inhibitor complex, VIRAL PROTEIN, HYDROLASE-INHIBITOR complex (chain "A" and (resid 1 through 11 or resid 13 through 44 or (resid 45 and (name N or name CA or name C or name O or name CB )) or resid 46 through 63 or resid 65 or (resid 66 and (name N or name CA or name C or name O or name CB )) or resid 67 through 99)) (chain "B" and (resid 1 through 11 or resid 13 through 54 or (resid 55 and (name N or name CA or name C or name O or name CB )) or resid 56 through 63 or resid 65 through 99)) A PRO 1 B PRO 1 A VAL 11 B VAL 11 A ILE 13 B ILE 13 A LEU 63 B LEU 63 A GLU 65 B GLU 65 A PHE 99 B PHE 99 B PRO 1 A PRO 1 B VAL 11 A VAL 11 B ILE 13 A ILE 13 B LEU 63 A LEU 63 B GLU 65 A GLU 65 B PHE 99 A PHE 99 given -0.485991898968 0.87393657355 -0.00683663292773 0.873904730412 0.486035026024 0.00777660861656 0.0101191057511 -0.00219519706654 -0.999946390967 0.55391583399 -0.0791075253692 10.4598336575 POL_HV1N5 UNP 1 489 P12497 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT PVNIIGRNLLTQIGCTLNF 489 587 9Q5D 1 99 P12497 B 1 1 99 489 587 9Q5D 1 99 P12497 A 1 1 99 1 GLN conflict LYS 7 9Q5D B P12497 UNP 495 7 2 GLN conflict LYS 7 9Q5D A P12497 UNP 495 7 4 8 8 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel parallel anti-parallel anti-parallel B GLN 2 A GLN 2 B THR 4 A THR 4 A THR 96 B THR 96 A ASN 98 B ASN 98 B THR 96 A THR 96 B ASN 98 A ASN 98 A GLN 2 B GLN 2 A ILE 3 B ILE 3 B LYS 43 A LYS 43 B GLY 49 A GLY 49 B GLY 52 A GLY 52 B ILE 66 A ILE 66 B HIS 69 A HIS 69 B VAL 77 A VAL 77 B THR 31 A THR 31 B LEU 33 A LEU 33 B ILE 84 A ILE 84 B ILE 85 A ILE 85 B GLN 18 A GLN 18 B LEU 24 A LEU 24 B LEU 10 A LEU 10 B ILE 15 A ILE 15 B GLY 52 A GLY 52 B ILE 66 A ILE 66 A LYS 43 B LYS 43 A GLY 48 B GLY 48 A PHE 53 B PHE 53 A ILE 66 B ILE 66 A HIS 69 B HIS 69 A VAL 77 B VAL 77 A THR 31 B THR 31 A LEU 33 B LEU 33 A ILE 84 B ILE 84 A ILE 85 B ILE 85 A GLN 18 B GLN 18 A LEU 24 B LEU 24 A LEU 10 B LEU 10 A ILE 15 B ILE 15 A PHE 53 B PHE 53 A ILE 66 B ILE 66 169 P 61 P 61