0.019520 0.000000 0.000000 0.000000 0.017039 0.000000 0.000000 0.000000 0.016080 0.00000 0.00000 0.00000 Martin, J.L. Begun, J. Schindeler, A. Wickramasinghe, W.A. Alewood, D. Alewood, P.F. Bergman, D.A. Brinkworth, R.I. Abbenante, G. March, D.R. Reid, R.C. Fairlie, D.P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 51.230 58.690 62.190 C4 H9 N O2 103.120 n ALPHA-AMINOBUTYRIC ACID L-peptide linking 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 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 H2 N 16.023 AMINO GROUP non-polymer C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C14 H20 Br N O4 346.217 4-{4-[(2S,3R)-2-amino-4-bromo-3-hydroxybutyl]phenoxy}butanoic acid non-polymer O4 S -2 96.063 SULFATE ION non-polymer 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 N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N C N 7 N O N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N H N 15 N H N 16 N H N 17 N N N 18 S C N 19 N C N 20 N O N 21 N C N 22 N O N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N N N 31 S C N 32 N C N 33 N O N 34 N C N 35 N C N 36 N C N 37 N N N 38 N C N 39 N N N 40 N N N 41 N O N 42 N H N 43 N H 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 N N 58 S C N 59 N C N 60 N O N 61 N C N 62 N C N 63 N O N 64 N N N 65 N O 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 N N 75 S C N 76 N C N 77 N O N 78 N C N 79 N C N 80 N O N 81 N O N 82 N O N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N N N 91 R C N 92 N C N 93 N O N 94 N C N 95 N S N 96 N O N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N N N 105 S C N 106 N C N 107 N O N 108 N C N 109 N C N 110 N C N 111 N O N 112 N N N 113 N O 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 C N 131 N O N 132 N O N 133 N O 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 H N 142 N H N 143 N N N 144 N C N 145 N C N 146 N O N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N N N 154 S C N 155 N C N 156 N O N 157 N C Y 158 N C Y 159 N N Y 160 N C Y 161 N C Y 162 N N 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 H N 172 N H N 173 N H N 174 N O N 175 N H N 176 N H N 177 N N N 178 S C N 179 N C N 180 N O N 181 S C N 182 N C N 183 N C N 184 N C N 185 N O N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N N N 200 S C N 201 N C N 202 N O N 203 N C N 204 N C N 205 N C N 206 N C N 207 N O N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N N N 222 S C N 223 N C N 224 N O N 225 N C N 226 N C N 227 N C N 228 N C N 229 N N N 230 N O N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N N N 247 S C N 248 N C N 249 N O N 250 N C N 251 N C N 252 N S N 253 N C N 254 N O N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N N N 267 N H N 268 N H N 269 N N N 270 S C N 271 N C N 272 N O N 273 N C Y 274 N C Y 275 N C Y 276 N C Y 277 N C Y 278 N C Y 279 N C N 280 N O N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N H N 292 N N N 293 S C N 294 N C N 295 N O N 296 N C N 297 N C N 298 N C N 299 N O N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N H N 307 N H N 308 N H N 309 R C N 310 N N N 311 N O N 312 N C N 313 N O N 314 N C N 315 N C N 316 N C N 317 N C N 318 S C N 319 N C Y 320 N C N 321 N O Y 322 N C Y 323 N C Y 324 N C Y 325 N C Y 326 N C N 327 N H N 328 N H N 329 N H N 330 N H N 331 N H N 332 N H N 333 N O N 334 N H N 335 N H N 336 N H N 337 N H N 338 N BR 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 H N 348 N H N 349 N S N 350 N O N 351 N O N 352 N O N 353 N O N 354 N N N 355 S C N 356 N C N 357 N O N 358 R C N 359 N O N 360 N C N 361 N O N 362 N H N 363 N H N 364 N H N 365 N H N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N N N 372 S C N 373 N C N 374 N O N 375 N C Y 376 N C Y 377 N C Y 378 N C Y 379 N N Y 380 N C Y 381 N C Y 382 N C Y 383 N C Y 384 N C N 385 N O N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 N H N 393 N H N 394 N H N 395 N H N 396 N H N 397 N H N 398 N N N 399 S C N 400 N C N 401 N O N 402 N C Y 403 N C Y 404 N C Y 405 N C Y 406 N C Y 407 N C Y 408 N C N 409 N O N 410 N O N 411 N H 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 H N 422 N N N 423 S C N 424 N C N 425 N O N 426 N C N 427 N C N 428 N C N 429 N O N 430 N H N 431 N H N 432 N H N 433 N H N 434 N H N 435 N H N 436 N H N 437 N H N 438 N H N 439 N H N 440 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 N 19 N sing N 20 N sing N 21 N sing N 22 N doub N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N doub N 35 N sing N 36 N sing N 37 N sing 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 sing N 46 N sing N 47 N sing N 48 N doub 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 doub N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N doub 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 doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N doub 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 doub N 92 N sing N 93 N sing 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 doub N 105 N sing 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 doub 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 sing N 120 N sing N 121 N sing N 122 N sing N 123 N doub 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 sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N doub N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N doub N 151 N sing N 152 N sing N 153 N sing N 154 N sing Y 155 N sing Y 156 N doub Y 157 N doub N 158 N sing Y 159 N sing N 160 N sing Y 161 N sing N 162 N sing 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 doub N 174 N sing N 175 N sing 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 sing 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 sing 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 sing N 213 N sing N 214 N sing N 215 N doub 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 sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N doub N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 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 sing N 258 N sing N 259 N sing N 260 N doub N 261 N sing N 262 N sing N 263 N sing N 264 N sing Y 265 N doub Y 266 N sing Y 267 N sing N 268 N sing Y 269 N doub N 270 N sing Y 271 N doub N 272 N sing Y 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N doub 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 sing N 300 N sing N 301 N sing N 302 N doub 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 Y 321 N sing N 322 N sing N 323 N sing Y 324 N sing Y 325 N doub N 326 N sing N 327 N sing Y 328 N doub Y 329 N sing N 330 N sing Y 331 N doub N 332 N sing N 333 N sing N 334 N doub N 335 N doub 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 doub 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 sing N 359 N sing N 360 N doub N 361 N sing N 362 N sing N 363 N sing N 364 N sing Y 365 N doub Y 366 N sing Y 367 N sing N 368 N sing Y 369 N doub Y 370 N sing Y 371 N sing N 372 N sing Y 373 N sing Y 374 N doub N 375 N sing Y 376 N doub N 377 N sing Y 378 N sing N 379 N sing N 380 N sing N 381 N sing 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 doub N 389 N sing N 390 N sing N 391 N sing N 392 N sing Y 393 N doub Y 394 N sing Y 395 N sing N 396 N sing Y 397 N doub N 398 N sing Y 399 N doub N 400 N sing Y 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 doub N 413 N sing N 414 N sing N 415 N sing N 416 N sing N 417 N sing N 418 N sing N 419 N sing N 420 N sing N 421 N sing N 422 N sing N 423 N sing US Biochemistry BICHAW 0033 0006-2960 38 7978 7988 10.1021/bi990174x 10387041 Molecular recognition of macrocyclic peptidomimetic inhibitors by HIV-1 protease. 1999 10.2210/pdb1b6j/pdb pdb_00001b6j 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 289 1 IMAGE PLATE 1993-12-01 RIGAKU RAXIS IIC GRAPHITE SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU200 10764.636 RETROPEPSIN 3.4.23.16 CYS67ABA, CYS95ABA, CYS167ABA, CYS195ABA 2 nat polymer 767.731 CYCLIC PEPTIDE INHIBITOR 1 syn polymer 96.063 SULFATE ION 3 syn non-polymer 18.015 water 120 nat water HIV-1 PR no yes PQITLWQRPLVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIGGIGGFIKVRQYDQIPVEI(ABA)GHKAIGTVL VGPTPVNIIGRNLLTQIG(ABA)TLNF PQITLWQRPLVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIGGIGGFIKVRQYDQIPVEIAGHKAIGTVLVGPT PVNIIGRNLLTQIGATLNF A,B polypeptide(L) no yes N(RTY)PIV(NH2) NXPIVX C 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 n n n n n n CYS RESIDUES REPLACED WITH ABA Lentivirus sample 11676 Human immunodeficiency virus 1 1 2.17 43.31 5.5 0.1 M ACETATE BUFFER PH 5.5 AND 30-60% AMMONIUM SULFATE chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_validate_polymer_linkage struct_conn struct_site chem_comp_atom chem_comp_bond struct_conn repository Initial release Version format compliance Version format compliance Structure summary Advisory Data collection Database references Derived calculations Refinement description Data collection Derived calculations 1 0 2000-01-07 1 1 2008-04-26 1 2 2011-07-13 1 3 2013-03-13 1 4 2023-08-09 1 5 2023-11-15 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _chem_comp_atom.atom_id _chem_comp_bond.atom_id_2 _struct_conn.pdbx_leaving_atom_flag HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 5 HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 4 HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 6 HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 3 HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 2 HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 7 BNL Y RCSB 1999-01-17 REL REL SO4 SULFATE ION HOH water 7HVP PDB ENTRY 7HVP PDB experimental model Inhibitor 1-{(2R)-2-[(8R,11S)-8-(2-amino-2-oxoethyl)-6,9-dioxo-2-oxa-7,10-diazabicyclo[11.2.2]heptadeca-1(15),13,16-trien-11-yl]-2-hydroxyethyl}-L-prolyl-L-isoleucyl-L-valinamide Peptide-like SO4 502 3 SO4 SO4 101 A SO4 503 3 SO4 SO4 102 A SO4 501 3 SO4 SO4 501 B HOH 302 4 HOH HOH 201 A HOH 303 4 HOH HOH 202 A HOH 304 4 HOH HOH 203 A HOH 305 4 HOH HOH 204 A HOH 306 4 HOH HOH 205 A HOH 307 4 HOH HOH 206 A HOH 308 4 HOH HOH 207 A HOH 309 4 HOH HOH 208 A HOH 310 4 HOH HOH 209 A HOH 312 4 HOH HOH 210 A HOH 313 4 HOH HOH 211 A HOH 314 4 HOH HOH 212 A HOH 315 4 HOH HOH 213 A HOH 316 4 HOH HOH 214 A HOH 317 4 HOH HOH 215 A HOH 318 4 HOH HOH 216 A HOH 330 4 HOH HOH 217 A HOH 331 4 HOH HOH 218 A HOH 332 4 HOH HOH 219 A HOH 333 4 HOH HOH 220 A HOH 334 4 HOH HOH 221 A HOH 335 4 HOH HOH 222 A HOH 336 4 HOH HOH 223 A HOH 337 4 HOH HOH 224 A HOH 342 4 HOH HOH 225 A HOH 343 4 HOH HOH 226 A HOH 347 4 HOH HOH 227 A HOH 348 4 HOH HOH 228 A HOH 349 4 HOH HOH 229 A HOH 350 4 HOH HOH 230 A HOH 351 4 HOH HOH 231 A HOH 352 4 HOH HOH 232 A HOH 353 4 HOH HOH 233 A HOH 358 4 HOH HOH 234 A HOH 359 4 HOH HOH 235 A HOH 362 4 HOH HOH 236 A HOH 364 4 HOH HOH 237 A HOH 365 4 HOH HOH 238 A HOH 367 4 HOH HOH 239 A HOH 368 4 HOH HOH 240 A HOH 369 4 HOH HOH 241 A HOH 372 4 HOH HOH 242 A HOH 373 4 HOH HOH 243 A HOH 374 4 HOH HOH 244 A HOH 375 4 HOH HOH 245 A HOH 379 4 HOH HOH 246 A HOH 381 4 HOH HOH 247 A HOH 382 4 HOH HOH 248 A HOH 383 4 HOH HOH 249 A HOH 388 4 HOH HOH 250 A HOH 392 4 HOH HOH 251 A HOH 396 4 HOH HOH 252 A HOH 397 4 HOH HOH 253 A HOH 398 4 HOH HOH 254 A HOH 399 4 HOH HOH 255 A HOH 403 4 HOH HOH 256 A HOH 404 4 HOH HOH 257 A HOH 405 4 HOH HOH 258 A HOH 407 4 HOH HOH 259 A HOH 408 4 HOH HOH 260 A HOH 409 4 HOH HOH 261 A HOH 412 4 HOH HOH 262 A HOH 413 4 HOH HOH 263 A HOH 415 4 HOH HOH 264 A HOH 416 4 HOH HOH 265 A HOH 417 4 HOH HOH 266 A HOH 418 4 HOH HOH 267 A HOH 311 4 HOH HOH 601 B HOH 319 4 HOH HOH 602 B HOH 320 4 HOH HOH 603 B HOH 321 4 HOH HOH 604 B HOH 322 4 HOH HOH 605 B HOH 323 4 HOH HOH 606 B HOH 324 4 HOH HOH 607 B HOH 325 4 HOH HOH 608 B HOH 326 4 HOH HOH 609 B HOH 327 4 HOH HOH 610 B HOH 328 4 HOH HOH 611 B HOH 329 4 HOH HOH 612 B HOH 338 4 HOH HOH 613 B HOH 339 4 HOH HOH 614 B HOH 340 4 HOH HOH 615 B HOH 341 4 HOH HOH 616 B HOH 344 4 HOH HOH 617 B HOH 345 4 HOH HOH 618 B HOH 346 4 HOH HOH 619 B HOH 354 4 HOH HOH 620 B HOH 355 4 HOH HOH 621 B HOH 356 4 HOH HOH 622 B HOH 357 4 HOH HOH 623 B HOH 360 4 HOH HOH 624 B HOH 361 4 HOH HOH 625 B HOH 363 4 HOH HOH 626 B HOH 366 4 HOH HOH 627 B HOH 370 4 HOH HOH 628 B HOH 371 4 HOH HOH 629 B HOH 376 4 HOH HOH 630 B HOH 377 4 HOH HOH 631 B HOH 378 4 HOH HOH 632 B HOH 380 4 HOH HOH 633 B HOH 384 4 HOH HOH 634 B HOH 385 4 HOH HOH 635 B HOH 386 4 HOH HOH 636 B HOH 387 4 HOH HOH 637 B HOH 389 4 HOH HOH 638 B HOH 390 4 HOH HOH 639 B HOH 391 4 HOH HOH 640 B HOH 393 4 HOH HOH 641 B HOH 394 4 HOH HOH 642 B HOH 395 4 HOH HOH 643 B HOH 400 4 HOH HOH 644 B HOH 401 4 HOH HOH 645 B HOH 402 4 HOH HOH 646 B HOH 406 4 HOH HOH 647 B HOH 410 4 HOH HOH 648 B HOH 411 4 HOH HOH 649 B HOH 414 4 HOH HOH 650 B HOH 419 4 HOH HOH 651 B HOH 420 4 HOH HOH 652 B HOH 301 4 HOH HOH 301 C 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 GLN 7 n 7 GLN 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 ARG 14 n 14 ARG 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 ALA 41 n 41 LYS 41 A TRP 42 n 42 TRP 42 A ALA 43 n 43 LYS 43 A PRO 44 n 44 PRO 44 A ALA 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 PRO 63 n 63 PRO 63 A VAL 64 n 64 VAL 64 A GLU 65 n 65 GLU 65 A ILE 66 n 66 ILE 66 A ABA 67 n 67 ABA 67 A GLY 68 n 68 GLY 68 A HIS 69 n 69 HIS 69 A ALA 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 ABA 95 n 95 ABA 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 PRO 101 n 1 PRO 101 B GLN 102 n 2 GLN 102 B ILE 103 n 3 ILE 103 B THR 104 n 4 THR 104 B LEU 105 n 5 LEU 105 B TRP 106 n 6 TRP 106 B GLN 107 n 7 GLN 107 B ARG 108 n 8 ARG 108 B PRO 109 n 9 PRO 109 B LEU 110 n 10 LEU 110 B VAL 111 n 11 VAL 111 B THR 112 n 12 THR 112 B ILE 113 n 13 ILE 113 B ARG 114 n 14 ARG 114 B ILE 115 n 15 ILE 115 B GLY 116 n 16 GLY 116 B GLY 117 n 17 GLY 117 B GLN 118 n 18 GLN 118 B LEU 119 n 19 LEU 119 B LYS 120 n 20 LYS 120 B GLU 121 n 21 GLU 121 B ALA 122 n 22 ALA 122 B LEU 123 n 23 LEU 123 B LEU 124 n 24 LEU 124 B ASP 125 n 25 ASP 125 B THR 126 n 26 THR 126 B GLY 127 n 27 GLY 127 B ALA 128 n 28 ALA 128 B ASP 129 n 29 ASP 129 B ASP 130 n 30 ASP 130 B THR 131 n 31 THR 131 B VAL 132 n 32 VAL 132 B LEU 133 n 33 LEU 133 B GLU 134 n 34 GLU 134 B GLU 135 n 35 GLU 135 B MET 136 n 36 MET 136 B ASN 137 n 37 ASN 137 B LEU 138 n 38 LEU 138 B PRO 139 n 39 PRO 139 B GLY 140 n 40 GLY 140 B ALA 141 n 41 LYS 141 B TRP 142 n 42 TRP 142 B ALA 143 n 43 LYS 143 B PRO 144 n 44 PRO 144 B LYS 145 n 45 LYS 145 B MET 146 n 46 MET 146 B ILE 147 n 47 ILE 147 B GLY 148 n 48 GLY 148 B GLY 149 n 49 GLY 149 B ILE 150 n 50 ILE 150 B GLY 151 n 51 GLY 151 B GLY 152 n 52 GLY 152 B PHE 153 n 53 PHE 153 B ILE 154 n 54 ILE 154 B LYS 155 n 55 LYS 155 B VAL 156 n 56 VAL 156 B ARG 157 n 57 ARG 157 B GLN 158 n 58 GLN 158 B TYR 159 n 59 TYR 159 B ASP 160 n 60 ASP 160 B GLN 161 n 61 GLN 161 B ILE 162 n 62 ILE 162 B PRO 163 n 63 PRO 163 B VAL 164 n 64 VAL 164 B GLU 165 n 65 GLU 165 B ILE 166 n 66 ILE 166 B ABA 167 n 67 ABA 167 B GLY 168 n 68 GLY 168 B HIS 169 n 69 HIS 169 B LYS 170 n 70 LYS 170 B ALA 171 n 71 ALA 171 B ILE 172 n 72 ILE 172 B GLY 173 n 73 GLY 173 B THR 174 n 74 THR 174 B VAL 175 n 75 VAL 175 B LEU 176 n 76 LEU 176 B VAL 177 n 77 VAL 177 B GLY 178 n 78 GLY 178 B PRO 179 n 79 PRO 179 B THR 180 n 80 THR 180 B PRO 181 n 81 PRO 181 B VAL 182 n 82 VAL 182 B ASN 183 n 83 ASN 183 B ILE 184 n 84 ILE 184 B ILE 185 n 85 ILE 185 B GLY 186 n 86 GLY 186 B ARG 187 n 87 ARG 187 B ASN 188 n 88 ASN 188 B LEU 189 n 89 LEU 189 B LEU 190 n 90 LEU 190 B THR 191 n 91 THR 191 B GLN 192 n 92 GLN 192 B ILE 193 n 93 ILE 193 B GLY 194 n 94 GLY 194 B ABA 195 n 95 ABA 195 B THR 196 n 96 THR 196 B LEU 197 n 97 LEU 197 B ASN 198 n 98 ASN 198 B PHE 199 n 99 PHE 199 B PI1 201 n 1 ASN 1 C PI1 201 n 2 RTY 2 C PI1 201 n 3 PRO 3 C PI1 201 n 4 ILE 4 C PI1 201 n 5 VAL 5 C PI1 201 n 6 NH2 6 C author_and_software_defined_assembly PISA 3 trimeric 5720 -57 9090 A ABA 67 ALPHA-AMINOBUTYRIC ACID A ABA 67 ALA A ABA 95 ALPHA-AMINOBUTYRIC ACID A ABA 95 ALA B ABA 167 ALPHA-AMINOBUTYRIC ACID B ABA 67 ALA B ABA 195 ALPHA-AMINOBUTYRIC ACID B ABA 95 ALA 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 A N ILE 3 A N ILE 3 B O LEU 197 B O LEU 97 B N ASN 198 B N ASN 98 A O THR 96 A O THR 96 A O LEU 97 A O LEU 97 B N ILE 103 B N ILE 3 1 A CG LYS 41 A CG LYS 41 1 Y 1 A CD LYS 41 A CD LYS 41 1 Y 1 A CE LYS 41 A CE LYS 41 1 Y 1 A NZ LYS 41 A NZ LYS 41 1 Y 1 A CG LYS 43 A CG LYS 43 1 Y 1 A CD LYS 43 A CD LYS 43 1 Y 1 A CE LYS 43 A CE LYS 43 1 Y 1 A NZ LYS 43 A NZ LYS 43 1 Y 1 A CG LYS 45 A CG LYS 45 1 Y 1 A CD LYS 45 A CD LYS 45 1 Y 1 A CE LYS 45 A CE LYS 45 1 Y 1 A NZ LYS 45 A NZ LYS 45 1 Y 1 A CG LYS 70 A CG LYS 70 1 Y 1 A CD LYS 70 A CD LYS 70 1 Y 1 A CE LYS 70 A CE LYS 70 1 Y 1 A NZ LYS 70 A NZ LYS 70 1 Y 1 B CG LYS 141 B CG LYS 41 1 Y 1 B CD LYS 141 B CD LYS 41 1 Y 1 B CE LYS 141 B CE LYS 41 1 Y 1 B NZ LYS 141 B NZ LYS 41 1 Y 1 B CG LYS 143 B CG LYS 43 1 Y 1 B CD LYS 143 B CD LYS 43 1 Y 1 B CE LYS 143 B CE LYS 43 1 Y 1 B NZ LYS 143 B NZ LYS 43 1 Y 1 A PRO 79 -69.53 86.30 1 B GLU 135 -37.93 125.46 PARHCSDXJABB TOPHCSDXJABB.PRO PARAM19.SOL TOPH19.SOL INHIBTOP.INP 19.4 0.00 0.00 0.00 0.00 0.00 0.00 0.2190000 0.006 0.1750000 1.85 8.00 1474 14540 10.1 89.1 RANDOM 10000000.00 0.00100 1 RESTRAINED THROUGHOUT 0.0 OTHER PDB ENTRY 7HVP 0.21 0.18 5.00 0.16 0.18 1.85 8.00 120 1676 15 0 1541 0.006 1.4 27.1 1.48 1.25 1.50 2.01 2.00 2.24 2.00 3.76 2.50 0.2460000 0.020 0.2310000 1.96 146 1310 6 10.0 54.7 8.4 1.85 50.0 1B6J 14847 1.0 0.066 1 12.5 5.7 89 1.85 1.92 3.9 0.230 1 50 model building X-PLOR refinement X-PLOR 3.851 data reduction DENZO data scaling SCALEPACK phasing X-PLOR HIV-1 PROTEASE COMPLEXED WITH MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 1 1 N N 1 N N 2 N N 3 N N 3 N N 3 N N 4 N N 4 N N 4 N N A GLY 86 A GLY 86 HELX_P A THR 91 A THR 91 1 1 6 B GLY 186 B GLY 86 HELX_P B THR 191 B THR 91 1 2 6 B GLN 192 B GLN 92 HELX_P B GLY 194 B GLY 94 5 3 3 covale 1.329 both A ILE 66 A C ILE 66 1_555 A ABA 67 A N ABA 67 1_555 covale 1.327 both A ABA 67 A C ABA 67 1_555 A GLY 68 A N GLY 68 1_555 covale 1.329 both A GLY 94 A C GLY 94 1_555 A ABA 95 A N ABA 95 1_555 covale 1.331 both A ABA 95 A C ABA 95 1_555 A THR 96 A N THR 96 1_555 covale 1.331 both B ILE 166 B C ILE 66 1_555 B ABA 167 B N ABA 67 1_555 covale 1.332 both B ABA 167 B C ABA 67 1_555 B GLY 168 B N GLY 68 1_555 covale 1.328 both B GLY 194 B C GLY 94 1_555 B ABA 195 B N ABA 95 1_555 covale 1.332 both B ABA 195 B C ABA 95 1_555 B THR 196 B N THR 96 1_555 covale 1.334 both sing C ASN 1 C C ASN 1 1_555 C RTY 2 C N RTY 2 1_555 covale 1.330 both sing C ASN 1 C N ASN 1 1_555 C RTY 2 C C2 RTY 2 1_555 covale 1.466 both sing C RTY 2 C C6 RTY 2 1_555 C PRO 3 C N PRO 3 1_555 covale 1.333 both sing C VAL 5 C C VAL 5 1_555 C NH2 6 C N NH2 6 1_555 HYDROLASE/HYDROLASE INHIBITOR COMPLEX (ACID PROTEINASE-PEPTIDE), HYDROLASE-HYDROLASE INHIBITOR COMPLEX POL_HV1A2 UNP 1 P03369 1B6J PDB 2 1B6J 57 155 1B6J 1 99 P03369 A 1 1 99 57 155 1B6J 101 199 P03369 B 1 1 99 1 6 1B6J 1 6 1B6J C 2 1 6 1 CYS SEE REMARK 999 ABA 67 1B6J A P03369 UNP 123 67 1 CYS SEE REMARK 999 ABA 95 1B6J A P03369 UNP 151 95 2 CYS SEE REMARK 999 ABA 167 1B6J B P03369 UNP 123 67 2 CYS SEE REMARK 999 ABA 195 1B6J B P03369 UNP 151 95 1 LYS SEE REMARK 999 LYS 41 1B6J A P03369 UNP 97 41 1 LYS SEE REMARK 999 LYS 43 1B6J A P03369 UNP 99 43 1 LYS SEE REMARK 999 LYS 45 1B6J A P03369 UNP 101 45 1 LYS SEE REMARK 999 LYS 70 1B6J A P03369 UNP 126 70 2 LYS SEE REMARK 999 LYS 141 1B6J B P03369 UNP 97 41 2 LYS SEE REMARK 999 LYS 143 1B6J B P03369 UNP 99 43 4 anti-parallel anti-parallel anti-parallel A GLN 2 A GLN 2 A THR 4 A THR 4 B THR 196 B THR 96 B ASN 198 B ASN 98 A THR 96 A THR 96 A ASN 98 A ASN 98 B GLN 102 B GLN 2 B THR 104 B THR 4 BINDING SITE FOR RESIDUE SO4 A 101 A SO4 101 Software 5 BINDING SITE FOR RESIDUE SO4 A 102 A SO4 102 Software 6 BINDING SITE FOR RESIDUE SO4 B 501 B SO4 501 Software 6 BINDING SITE FOR CHAIN C OF CYCLIC PEPTIDE INHIBITOR Software 21 A PRO 1 A PRO 1 5 1_555 A ARG 57 A ARG 57 5 2_455 A HIS 69 A HIS 69 5 1_555 A HOH 213 G HOH 5 1_555 A HOH 254 G HOH 5 1_555 A ARG 14 A ARG 14 6 1_555 B ARG 114 B ARG 14 6 1_455 B GLY 116 B GLY 16 6 1_455 B GLY 117 B GLY 17 6 1_455 B HOH 614 H HOH 6 1_455 B HOH 633 H HOH 6 1_455 A GLY 68 A GLY 68 6 3_545 A HIS 69 A HIS 69 6 3_545 A LYS 70 A LYS 70 6 3_545 A HOH 244 G HOH 6 3_545 B PRO 101 B PRO 1 6 2_554 B LYS 155 B LYS 55 6 1_555 A ARG 8 A ARG 8 21 1_555 A ASP 25 A ASP 25 21 1_555 A GLY 27 A GLY 27 21 1_555 A ALA 28 A ALA 28 21 1_555 A ASP 29 A ASP 29 21 1_555 A ASP 30 A ASP 30 21 1_555 A GLY 48 A GLY 48 21 1_555 A GLY 49 A GLY 49 21 1_555 A ILE 50 A ILE 50 21 1_555 A PRO 81 A PRO 81 21 1_555 A HOH 228 G HOH 21 1_555 B ARG 108 B ARG 8 21 1_555 B ASP 125 B ASP 25 21 1_555 B GLY 127 B GLY 27 21 1_555 B ALA 128 B ALA 28 21 1_555 B ASP 129 B ASP 29 21 1_555 B ILE 147 B ILE 47 21 1_555 B GLY 148 B GLY 48 21 1_555 B GLY 149 B GLY 49 21 1_555 B VAL 182 B VAL 82 21 1_555 C HOH 301 I HOH 21 1_555 19 P 21 21 21