0.017447
0.000000
0.000000
0.000000
0.011706
0.000000
0.000000
0.000000
0.021652
0.00000
0.00000
0.00000
Mahalingam, B.
Louis, J.M.
Harrison, R.W.
Weber, I.T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
57.315
85.427
46.186
C35 H68 N11 O8 1
770.983
N-{(2S)-2-[(N-acetyl-L-threonyl-L-isoleucyl)amino]hexyl}-L-norleucyl-L-glutaminyl-N~5~-[amino(iminio)methyl]-L-ornithinamide
p2/NC
peptide-like
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
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
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
N
1
N
C
N
2
N
O
N
3
N
C
N
4
N
N
N
5
S
C
N
6
N
C
N
7
N
O
N
8
R
C
N
9
N
O
N
10
N
C
N
11
N
N
N
12
S
C
N
13
N
C
N
14
N
O
N
15
S
C
N
16
N
C
N
17
N
C
N
18
N
C
N
19
N
N
N
20
S
C
N
21
N
C
N
22
N
C
N
23
N
C
N
24
N
C
N
25
N
C
N
26
N
N
N
27
S
C
N
28
N
C
N
29
N
O
N
30
N
C
N
31
N
C
N
32
N
C
N
33
N
C
N
34
N
N
N
35
S
C
N
36
N
C
N
37
N
O
N
38
N
C
N
39
N
C
N
40
N
C
N
41
N
O
N
42
N
N
N
43
N
N
N
44
S
C
N
45
N
C
N
46
N
O
N
47
N
C
N
48
N
C
N
49
N
C
N
50
N
N
N
51
N
C
N
52
N
N
N
53
N
N
N
54
N
N
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
H
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
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
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
H
N
105
N
H
N
106
N
H
N
107
N
H
N
108
N
H
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
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
N
128
N
O
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
N
N
137
S
C
N
138
N
C
N
139
N
O
N
140
N
C
N
141
N
C
N
142
N
C
N
143
N
N
N
144
N
C
N
145
N
N
N
146
N
N
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
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
N
N
164
S
C
N
165
N
C
N
166
N
O
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
N
N
171
N
O
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
N
N
181
S
C
N
182
N
C
N
183
N
O
N
184
N
C
N
185
N
C
N
186
N
O
N
187
N
O
N
188
N
O
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
N
N
197
R
C
N
198
N
C
N
199
N
O
N
200
N
C
N
201
N
S
N
202
N
O
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
S
C
N
212
N
C
N
213
N
O
N
214
N
C
N
215
N
C
N
216
N
C
N
217
N
O
N
218
N
N
N
219
N
O
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
N
N
N
231
S
C
N
232
N
C
N
233
N
O
N
234
N
C
N
235
N
C
N
236
N
C
N
237
N
O
N
238
N
O
N
239
N
O
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
H
N
247
N
H
N
248
N
H
N
249
N
N
N
250
N
C
N
251
N
C
N
252
N
O
N
253
N
O
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
H
N
259
N
N
N
260
S
C
N
261
N
C
N
262
N
O
N
263
N
C
Y
264
N
C
Y
265
N
N
Y
266
N
C
Y
267
N
C
Y
268
N
N
N
269
N
O
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
O
N
281
N
H
N
282
N
H
N
283
N
N
N
284
S
C
N
285
N
C
N
286
N
O
N
287
S
C
N
288
N
C
N
289
N
C
N
290
N
C
N
291
N
O
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
H
N
303
N
H
N
304
N
H
N
305
N
N
N
306
S
C
N
307
N
C
N
308
N
O
N
309
N
C
N
310
N
C
N
311
N
C
N
312
N
C
N
313
N
O
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
C
N
334
N
C
N
335
N
N
N
336
N
O
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
H
N
348
N
H
N
349
N
H
N
350
N
H
N
351
N
H
N
352
N
N
N
353
S
C
N
354
N
C
N
355
N
O
N
356
N
C
N
357
N
C
N
358
N
S
N
359
N
C
N
360
N
O
N
361
N
H
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
H
N
372
N
N
N
373
S
C
N
374
N
C
N
375
N
O
N
376
N
C
Y
377
N
C
Y
378
N
C
Y
379
N
C
Y
380
N
C
Y
381
N
C
Y
382
N
C
N
383
N
O
N
384
N
H
N
385
N
H
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
N
N
396
S
C
N
397
N
C
N
398
N
O
N
399
N
C
N
400
N
C
N
401
N
C
N
402
N
O
N
403
N
H
N
404
N
H
N
405
N
H
N
406
N
H
N
407
N
H
N
408
N
H
N
409
N
H
N
410
N
H
N
411
N
H
N
412
N
N
N
413
S
C
N
414
N
C
N
415
N
O
N
416
N
C
N
417
N
O
N
418
N
O
N
419
N
H
N
420
N
H
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
N
426
N
N
N
427
S
C
N
428
N
C
N
429
N
O
N
430
R
C
N
431
N
O
N
432
N
C
N
433
N
O
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
441
N
H
N
442
N
H
N
443
N
N
N
444
S
C
N
445
N
C
N
446
N
O
N
447
N
C
Y
448
N
C
Y
449
N
C
Y
450
N
C
Y
451
N
N
Y
452
N
C
Y
453
N
C
Y
454
N
C
Y
455
N
C
Y
456
N
C
N
457
N
O
N
458
N
H
N
459
N
H
N
460
N
H
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
N
N
471
S
C
N
472
N
C
N
473
N
O
N
474
N
C
Y
475
N
C
Y
476
N
C
Y
477
N
C
Y
478
N
C
Y
479
N
C
Y
480
N
C
N
481
N
O
N
482
N
O
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
491
N
H
N
492
N
H
N
493
N
H
N
494
N
N
N
495
S
C
N
496
N
C
N
497
N
O
N
498
N
C
N
499
N
C
N
500
N
C
N
501
N
O
N
502
N
H
N
503
N
H
N
504
N
H
N
505
N
H
N
506
N
H
N
507
N
H
N
508
N
H
N
509
N
H
N
510
N
H
N
511
N
H
N
512
N
H
N
1
N
doub
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
doub
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
sing
N
23
N
sing
N
24
N
doub
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
sing
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
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
doub
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
doub
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
doub
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
sing
N
106
N
doub
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
sing
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
doub
N
129
N
sing
N
130
N
sing
N
131
N
sing
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
doub
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
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
doub
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
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
doub
N
172
N
sing
N
173
N
sing
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
doub
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
doub
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
sing
N
195
N
sing
N
196
N
sing
N
197
N
doub
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
doub
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
doub
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
doub
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
doub
N
238
N
sing
N
239
N
sing
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
doub
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
doub
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
sing
Y
261
N
sing
Y
262
N
doub
Y
263
N
doub
N
264
N
sing
Y
265
N
sing
N
266
N
sing
Y
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
sing
N
279
N
doub
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
sing
N
300
N
doub
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
doub
N
322
N
sing
N
323
N
sing
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
doub
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
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
doub
N
365
N
sing
N
366
N
sing
N
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
doub
N
374
N
sing
Y
375
N
doub
N
376
N
sing
Y
377
N
sing
N
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
doub
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
sing
N
399
N
sing
N
400
N
sing
N
401
N
sing
N
402
N
sing
N
403
N
sing
N
404
N
doub
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
sing
N
415
N
sing
N
416
N
sing
N
417
N
doub
N
418
N
sing
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
N
429
N
sing
N
430
N
sing
N
431
N
sing
N
432
N
sing
N
433
N
doub
N
434
N
sing
N
435
N
sing
N
436
N
sing
N
437
N
sing
Y
438
N
doub
Y
439
N
sing
Y
440
N
sing
N
441
N
sing
Y
442
N
doub
Y
443
N
sing
Y
444
N
sing
N
445
N
sing
Y
446
N
sing
Y
447
N
doub
N
448
N
sing
Y
449
N
doub
N
450
N
sing
Y
451
N
sing
N
452
N
sing
N
453
N
sing
N
454
N
sing
N
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
doub
N
462
N
sing
N
463
N
sing
N
464
N
sing
N
465
N
sing
Y
466
N
doub
Y
467
N
sing
Y
468
N
sing
N
469
N
sing
Y
470
N
doub
N
471
N
sing
Y
472
N
doub
N
473
N
sing
Y
474
N
sing
N
475
N
sing
N
476
N
sing
N
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
doub
N
486
N
sing
N
487
N
sing
N
488
N
sing
N
489
N
sing
N
490
N
sing
N
491
N
sing
N
492
N
sing
N
493
N
sing
N
494
N
sing
N
495
N
sing
N
496
N
sing
US
Proteins
PSFGEY
0867
0887-3585
43
455
464
10.1002/prot.1057
11340661
Structural implications of drug-resistant mutants of HIV-1 protease: high-resolution crystal structures of the mutant protease/substrate analogue complexes.
2001
10.2210/pdb1fg6/pdb
pdb_00001fg6
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
90
1
CCD
1999-10-09
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
1.037
1.0
X12B
NSLS
1.037
SYNCHROTRON
NSLS BEAMLINE X12B
10741.661
PROTEASE RETROPEPSIN
3.4.23.16
N88D
2
man
polymer
SEQUENCE ANALOGOUS TO THE p2-NC PROCESSING SITE IN HIV-1
770.983
N-{(2S)-2-[(N-acetyl-L-threonyl-L-isoleucyl)amino]hexyl}-L-norleucyl-L-glutaminyl-N~5~-[amino(iminio)methyl]-L-ornithinamide
1
syn
non-polymer
18.015
water
111
nat
water
E.C.3.4.23.16
no
no
PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVLVGPT
PVNIIGRDLLTQIGATLNF
PQITLWKRPLVTIKIGGQLKEALLDTGADDTVIEEMSLPGRWKPKMIGGIGGFIKVRQYDQIIIEIAGHKAIGTVLVGPT
PVNIIGRDLLTQIGATLNF
C,D
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
Lentivirus
Escherichia
sample
11676
Human immunodeficiency virus 1
562
Escherichia coli
1
2.54
51.56
VAPOR DIFFUSION, HANGING DROP
CITRATE/PHOSPHATE BUFFER 0.05M, DTT 10MM,
DMSO 10%, SATURATED AMMONIUM SULPHAT25-50%, PROTEIN 2-5 MG/ML, pH 5.0-6.5.
VAPOR DIFFUSION, HANGING DROP at 298K
298
database_2
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
entity
pdbx_entity_src_syn
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Non-polymer description
Other
Database references
Derived calculations
Data collection
Source and taxonomy
Structure summary
1
0
2001-06-01
1
1
2008-04-27
1
2
2011-07-13
1
3
2012-05-09
1
4
2013-02-27
1
5
2021-11-03
1
6
2024-02-07
1
7
2024-03-13
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_entity.details
RCSB
Y
RCSB
2000-07-25
REL
2NC
N-{(2S)-2-[(N-acetyl-L-threonyl-L-isoleucyl)amino]hexyl}-L-norleucyl-L-glutaminyl-N~5~-[amino(iminio)methyl]-L-ornithinamide
HOH
water
THE INHIBITOR 2NC HAS A REDUCED PEPTIDE BOND ISOSTERE
[CH2-NH] IN PLACE OF THE SCISSILE AMIDE. THE COORDINATES OF 2NC
WERE DEPOSITED WITH AN EXTRA ATOM O6 AT ZERO OCCUPANCY. THIS ZERO OCCUPANCY O6 HAS BEEN REMOVED FROM THE RELEASED FILE.
MUTATIONS Q7K, L33I, L63I, C67A, C95A, HAVE BEEN MADE TO
STABILIZE THE PROTEASE FROM AUTOPROTEOLYSIS, WHILE
RETAINING ACTIVITY SIMILAR TO WILD-TYPE HIV-1 PROTEASE
Inhibitor
N-{(2S)-2-[(N-acetyl-L-threonyl-L-isoleucyl)amino]hexyl}-L-norleucyl-L-glutaminyl-N~5~-[amino(iminio)methyl]-L-ornithinamide
Peptide-like
ACE
300
2
2NC
2NC
300
D
HOH
6
3
HOH
HOH
100
C
HOH
8
3
HOH
HOH
101
C
HOH
9
3
HOH
HOH
102
C
HOH
12
3
HOH
HOH
103
C
HOH
17
3
HOH
HOH
104
C
HOH
18
3
HOH
HOH
105
C
HOH
21
3
HOH
HOH
106
C
HOH
29
3
HOH
HOH
107
C
HOH
31
3
HOH
HOH
108
C
HOH
32
3
HOH
HOH
109
C
HOH
34
3
HOH
HOH
110
C
HOH
37
3
HOH
HOH
111
C
HOH
40
3
HOH
HOH
112
C
HOH
47
3
HOH
HOH
113
C
HOH
52
3
HOH
HOH
114
C
HOH
55
3
HOH
HOH
115
C
HOH
56
3
HOH
HOH
116
C
HOH
64
3
HOH
HOH
117
C
HOH
70
3
HOH
HOH
118
C
HOH
76
3
HOH
HOH
119
C
HOH
77
3
HOH
HOH
120
C
HOH
78
3
HOH
HOH
121
C
HOH
83
3
HOH
HOH
122
C
HOH
85
3
HOH
HOH
123
C
HOH
95
3
HOH
HOH
124
C
HOH
98
3
HOH
HOH
125
C
HOH
103
3
HOH
HOH
126
C
HOH
109
3
HOH
HOH
127
C
HOH
121
3
HOH
HOH
128
C
HOH
124
3
HOH
HOH
129
C
HOH
127
3
HOH
HOH
130
C
HOH
134
3
HOH
HOH
131
C
HOH
135
3
HOH
HOH
132
C
HOH
144
3
HOH
HOH
133
C
HOH
150
3
HOH
HOH
134
C
HOH
151
3
HOH
HOH
135
C
HOH
166
3
HOH
HOH
136
C
HOH
168
3
HOH
HOH
137
C
HOH
176
3
HOH
HOH
138
C
HOH
185
3
HOH
HOH
139
C
HOH
196
3
HOH
HOH
140
C
HOH
198
3
HOH
HOH
141
C
HOH
208
3
HOH
HOH
142
C
HOH
218
3
HOH
HOH
143
C
HOH
219
3
HOH
HOH
144
C
HOH
235
3
HOH
HOH
145
C
HOH
242
3
HOH
HOH
146
C
HOH
245
3
HOH
HOH
147
C
HOH
254
3
HOH
HOH
148
C
HOH
265
3
HOH
HOH
149
C
HOH
19
3
HOH
HOH
19
D
HOH
39
3
HOH
HOH
39
D
HOH
62
3
HOH
HOH
62
D
HOH
2
3
HOH
HOH
200
D
HOH
4
3
HOH
HOH
201
D
HOH
5
3
HOH
HOH
202
D
HOH
13
3
HOH
HOH
203
D
HOH
20
3
HOH
HOH
204
D
HOH
23
3
HOH
HOH
205
D
HOH
25
3
HOH
HOH
206
D
HOH
26
3
HOH
HOH
207
D
HOH
28
3
HOH
HOH
208
D
HOH
35
3
HOH
HOH
209
D
HOH
41
3
HOH
HOH
210
D
HOH
42
3
HOH
HOH
211
D
HOH
43
3
HOH
HOH
212
D
HOH
44
3
HOH
HOH
213
D
HOH
45
3
HOH
HOH
214
D
HOH
48
3
HOH
HOH
215
D
HOH
50
3
HOH
HOH
216
D
HOH
53
3
HOH
HOH
217
D
HOH
54
3
HOH
HOH
218
D
HOH
57
3
HOH
HOH
219
D
HOH
58
3
HOH
HOH
220
D
HOH
60
3
HOH
HOH
221
D
HOH
68
3
HOH
HOH
222
D
HOH
69
3
HOH
HOH
223
D
HOH
71
3
HOH
HOH
224
D
HOH
80
3
HOH
HOH
225
D
HOH
82
3
HOH
HOH
226
D
HOH
84
3
HOH
HOH
227
D
HOH
87
3
HOH
HOH
228
D
HOH
90
3
HOH
HOH
229
D
HOH
91
3
HOH
HOH
230
D
HOH
93
3
HOH
HOH
231
D
HOH
94
3
HOH
HOH
232
D
HOH
97
3
HOH
HOH
233
D
HOH
106
3
HOH
HOH
234
D
HOH
110
3
HOH
HOH
235
D
HOH
111
3
HOH
HOH
236
D
HOH
113
3
HOH
HOH
237
D
HOH
114
3
HOH
HOH
238
D
HOH
118
3
HOH
HOH
239
D
HOH
119
3
HOH
HOH
240
D
HOH
131
3
HOH
HOH
241
D
HOH
141
3
HOH
HOH
242
D
HOH
142
3
HOH
HOH
243
D
HOH
152
3
HOH
HOH
244
D
HOH
158
3
HOH
HOH
245
D
HOH
161
3
HOH
HOH
246
D
HOH
164
3
HOH
HOH
247
D
HOH
171
3
HOH
HOH
248
D
HOH
175
3
HOH
HOH
249
D
HOH
181
3
HOH
HOH
250
D
HOH
182
3
HOH
HOH
251
D
HOH
188
3
HOH
HOH
252
D
HOH
207
3
HOH
HOH
253
D
HOH
229
3
HOH
HOH
254
D
HOH
240
3
HOH
HOH
255
D
HOH
247
3
HOH
HOH
256
D
HOH
162
3
HOH
HOH
257
D
PRO
1
n
1
PRO
1
C
GLN
2
n
2
GLN
2
C
ILE
3
n
3
ILE
3
C
THR
4
n
4
THR
4
C
LEU
5
n
5
LEU
5
C
TRP
6
n
6
TRP
6
C
LYS
7
n
7
LYS
7
C
ARG
8
n
8
ARG
8
C
PRO
9
n
9
PRO
9
C
LEU
10
n
10
LEU
10
C
VAL
11
n
11
VAL
11
C
THR
12
n
12
THR
12
C
ILE
13
n
13
ILE
13
C
LYS
14
n
14
LYS
14
C
ILE
15
n
15
ILE
15
C
GLY
16
n
16
GLY
16
C
GLY
17
n
17
GLY
17
C
GLN
18
n
18
GLN
18
C
LEU
19
n
19
LEU
19
C
LYS
20
n
20
LYS
20
C
GLU
21
n
21
GLU
21
C
ALA
22
n
22
ALA
22
C
LEU
23
n
23
LEU
23
C
LEU
24
n
24
LEU
24
C
ASP
25
n
25
ASP
25
C
THR
26
n
26
THR
26
C
GLY
27
n
27
GLY
27
C
ALA
28
n
28
ALA
28
C
ASP
29
n
29
ASP
29
C
ASP
30
n
30
ASP
30
C
THR
31
n
31
THR
31
C
VAL
32
n
32
VAL
32
C
ILE
33
n
33
ILE
33
C
GLU
34
n
34
GLU
34
C
GLU
35
n
35
GLU
35
C
MET
36
n
36
MET
36
C
SER
37
n
37
SER
37
C
LEU
38
n
38
LEU
38
C
PRO
39
n
39
PRO
39
C
GLY
40
n
40
GLY
40
C
ARG
41
n
41
ARG
41
C
TRP
42
n
42
TRP
42
C
LYS
43
n
43
LYS
43
C
PRO
44
n
44
PRO
44
C
LYS
45
n
45
LYS
45
C
MET
46
n
46
MET
46
C
ILE
47
n
47
ILE
47
C
GLY
48
n
48
GLY
48
C
GLY
49
n
49
GLY
49
C
ILE
50
n
50
ILE
50
C
GLY
51
n
51
GLY
51
C
GLY
52
n
52
GLY
52
C
PHE
53
n
53
PHE
53
C
ILE
54
n
54
ILE
54
C
LYS
55
n
55
LYS
55
C
VAL
56
n
56
VAL
56
C
ARG
57
n
57
ARG
57
C
GLN
58
n
58
GLN
58
C
TYR
59
n
59
TYR
59
C
ASP
60
n
60
ASP
60
C
GLN
61
n
61
GLN
61
C
ILE
62
n
62
ILE
62
C
ILE
63
n
63
ILE
63
C
ILE
64
n
64
ILE
64
C
GLU
65
n
65
GLU
65
C
ILE
66
n
66
ILE
66
C
ALA
67
n
67
ALA
67
C
GLY
68
n
68
GLY
68
C
HIS
69
n
69
HIS
69
C
LYS
70
n
70
LYS
70
C
ALA
71
n
71
ALA
71
C
ILE
72
n
72
ILE
72
C
GLY
73
n
73
GLY
73
C
THR
74
n
74
THR
74
C
VAL
75
n
75
VAL
75
C
LEU
76
n
76
LEU
76
C
VAL
77
n
77
VAL
77
C
GLY
78
n
78
GLY
78
C
PRO
79
n
79
PRO
79
C
THR
80
n
80
THR
80
C
PRO
81
n
81
PRO
81
C
VAL
82
n
82
VAL
82
C
ASN
83
n
83
ASN
83
C
ILE
84
n
84
ILE
84
C
ILE
85
n
85
ILE
85
C
GLY
86
n
86
GLY
86
C
ARG
87
n
87
ARG
87
C
ASP
88
n
88
ASP
88
C
LEU
89
n
89
LEU
89
C
LEU
90
n
90
LEU
90
C
THR
91
n
91
THR
91
C
GLN
92
n
92
GLN
92
C
ILE
93
n
93
ILE
93
C
GLY
94
n
94
GLY
94
C
ALA
95
n
95
ALA
95
C
THR
96
n
96
THR
96
C
LEU
97
n
97
LEU
97
C
ASN
98
n
98
ASN
98
C
PHE
99
n
99
PHE
99
C
PRO
101
n
1
PRO
101
D
GLN
102
n
2
GLN
102
D
ILE
103
n
3
ILE
103
D
THR
104
n
4
THR
104
D
LEU
105
n
5
LEU
105
D
TRP
106
n
6
TRP
106
D
LYS
107
n
7
LYS
107
D
ARG
108
n
8
ARG
108
D
PRO
109
n
9
PRO
109
D
LEU
110
n
10
LEU
110
D
VAL
111
n
11
VAL
111
D
THR
112
n
12
THR
112
D
ILE
113
n
13
ILE
113
D
LYS
114
n
14
LYS
114
D
ILE
115
n
15
ILE
115
D
GLY
116
n
16
GLY
116
D
GLY
117
n
17
GLY
117
D
GLN
118
n
18
GLN
118
D
LEU
119
n
19
LEU
119
D
LYS
120
n
20
LYS
120
D
GLU
121
n
21
GLU
121
D
ALA
122
n
22
ALA
122
D
LEU
123
n
23
LEU
123
D
LEU
124
n
24
LEU
124
D
ASP
125
n
25
ASP
125
D
THR
126
n
26
THR
126
D
GLY
127
n
27
GLY
127
D
ALA
128
n
28
ALA
128
D
ASP
129
n
29
ASP
129
D
ASP
130
n
30
ASP
130
D
THR
131
n
31
THR
131
D
VAL
132
n
32
VAL
132
D
ILE
133
n
33
ILE
133
D
GLU
134
n
34
GLU
134
D
GLU
135
n
35
GLU
135
D
MET
136
n
36
MET
136
D
SER
137
n
37
SER
137
D
LEU
138
n
38
LEU
138
D
PRO
139
n
39
PRO
139
D
GLY
140
n
40
GLY
140
D
ARG
141
n
41
ARG
141
D
TRP
142
n
42
TRP
142
D
LYS
143
n
43
LYS
143
D
PRO
144
n
44
PRO
144
D
LYS
145
n
45
LYS
145
D
MET
146
n
46
MET
146
D
ILE
147
n
47
ILE
147
D
GLY
148
n
48
GLY
148
D
GLY
149
n
49
GLY
149
D
ILE
150
n
50
ILE
150
D
GLY
151
n
51
GLY
151
D
GLY
152
n
52
GLY
152
D
PHE
153
n
53
PHE
153
D
ILE
154
n
54
ILE
154
D
LYS
155
n
55
LYS
155
D
VAL
156
n
56
VAL
156
D
ARG
157
n
57
ARG
157
D
GLN
158
n
58
GLN
158
D
TYR
159
n
59
TYR
159
D
ASP
160
n
60
ASP
160
D
GLN
161
n
61
GLN
161
D
ILE
162
n
62
ILE
162
D
ILE
163
n
63
ILE
163
D
ILE
164
n
64
ILE
164
D
GLU
165
n
65
GLU
165
D
ILE
166
n
66
ILE
166
D
ALA
167
n
67
ALA
167
D
GLY
168
n
68
GLY
168
D
HIS
169
n
69
HIS
169
D
LYS
170
n
70
LYS
170
D
ALA
171
n
71
ALA
171
D
ILE
172
n
72
ILE
172
D
GLY
173
n
73
GLY
173
D
THR
174
n
74
THR
174
D
VAL
175
n
75
VAL
175
D
LEU
176
n
76
LEU
176
D
VAL
177
n
77
VAL
177
D
GLY
178
n
78
GLY
178
D
PRO
179
n
79
PRO
179
D
THR
180
n
80
THR
180
D
PRO
181
n
81
PRO
181
D
VAL
182
n
82
VAL
182
D
ASN
183
n
83
ASN
183
D
ILE
184
n
84
ILE
184
D
ILE
185
n
85
ILE
185
D
GLY
186
n
86
GLY
186
D
ARG
187
n
87
ARG
187
D
ASP
188
n
88
ASP
188
D
LEU
189
n
89
LEU
189
D
LEU
190
n
90
LEU
190
D
THR
191
n
91
THR
191
D
GLN
192
n
92
GLN
192
D
ILE
193
n
93
ILE
193
D
GLY
194
n
94
GLY
194
D
ALA
195
n
95
ALA
195
D
THR
196
n
96
THR
196
D
LEU
197
n
97
LEU
197
D
ASN
198
n
98
ASN
198
D
PHE
199
n
99
PHE
199
D
author_and_software_defined_assembly
PISA
2
dimeric
5490
-30
9180
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
C
N
ILE
3
A
N
ILE
3
D
O
LEU
197
B
O
LEU
97
D
N
ASN
198
B
N
ASN
98
C
O
THR
96
A
O
THR
96
C
O
LEU
97
A
O
LEU
97
D
N
ILE
103
B
N
ILE
3
0.2480000
0.2190000
1.80
8.0
1190
20327
5.9
Random
1
THROUGHOUT
1.0
ENGH & HUBER
1.80
8.0
111
1677
54
0
1512
1.80
25
1FG6
0.0680000
1
0.3130000
1.80
1.88
1
90.1
phasing
AMoRE
refinement
X-PLOR
3.843
data collection
ADSC
data reduction
DENZO
data scaling
SCALEPACK
STRUCTURAL IMPLICATIONS OF DRUG RESISTANT MUTANTS OF HIV-1 PROTEASE: HIGH RESOLUTION CRYSTAL STRUCTURES OF THE MUTANT PROTEASE/SUBSTRATE ANALOG COMPLEXES
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
The biological assembly is a dimer consisting of chains C and D
C
GLY
86
A
GLY
86
HELX_P
C
THR
91
A
THR
91
1
1
6
D
GLY
186
B
GLY
86
HELX_P
D
ILE
193
B
ILE
93
1
2
8
HYDROLASE/HYDROLASE INHIBITOR
HIV-1 PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
POL_HV1B5
UNP
1
69
P04587
PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKMIGGIGGFIKVRQYDQILIEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
69
167
1FG6
1
99
P04587
C
1
1
99
69
167
1FG6
101
199
P04587
D
1
1
99
1
GLN
engineered mutation
LYS
7
1FG6
C
P04587
UNP
75
7
1
LEU
engineered mutation
ILE
33
1FG6
C
P04587
UNP
101
33
1
LEU
engineered mutation
ILE
63
1FG6
C
P04587
UNP
131
63
1
CYS
engineered mutation
ALA
67
1FG6
C
P04587
UNP
135
67
1
ASN
engineered mutation
ASP
88
1FG6
C
P04587
UNP
156
88
1
CYS
engineered mutation
ALA
95
1FG6
C
P04587
UNP
163
95
2
GLN
engineered mutation
LYS
107
1FG6
D
P04587
UNP
75
7
2
LEU
engineered mutation
ILE
133
1FG6
D
P04587
UNP
101
33
2
LEU
engineered mutation
ILE
163
1FG6
D
P04587
UNP
131
63
2
CYS
engineered mutation
ALA
167
1FG6
D
P04587
UNP
135
67
2
ASN
engineered mutation
ASP
188
1FG6
D
P04587
UNP
156
88
2
CYS
engineered mutation
ALA
195
1FG6
D
P04587
UNP
163
95
4
anti-parallel
anti-parallel
anti-parallel
C
GLN
2
A
GLN
2
C
THR
4
A
THR
4
D
THR
196
B
THR
96
D
ASN
198
B
ASN
98
C
THR
96
A
THR
96
C
ASN
98
A
ASN
98
D
GLN
102
B
GLN
2
D
THR
104
B
THR
4
BINDING SITE FOR RESIDUE 2NC D 300
D
2NC
300
Software
26
C
LEU
23
A
LEU
23
26
1_555
C
ASP
25
A
ASP
25
26
1_555
C
GLY
27
A
GLY
27
26
1_555
C
ALA
28
A
ALA
28
26
1_555
C
ASP
29
A
ASP
29
26
1_555
C
ASP
30
A
ASP
30
26
1_555
C
GLY
48
A
GLY
48
26
1_555
C
GLY
49
A
GLY
49
26
1_555
C
VAL
82
A
VAL
82
26
1_555
C
ILE
84
A
ILE
84
26
1_555
C
HOH
101
D
HOH
26
1_555
D
HOH
19
E
HOH
26
1_555
D
HOH
39
E
HOH
26
1_555
D
HOH
62
E
HOH
26
1_555
D
ASP
125
B
ASP
25
26
1_555
D
GLY
127
B
GLY
27
26
1_555
D
ALA
128
B
ALA
28
26
1_555
D
ASP
129
B
ASP
29
26
1_555
D
ASP
130
B
ASP
30
26
1_555
D
ILE
147
B
ILE
47
26
1_555
D
GLY
148
B
GLY
48
26
1_555
D
GLY
149
B
GLY
49
26
1_555
D
VAL
182
B
VAL
82
26
1_555
D
HOH
205
E
HOH
26
1_555
D
HOH
240
E
HOH
26
1_555
D
HOH
257
E
HOH
26
1_555
18
orthorhombic
P 21 21 2