0.019801
0.000000
0.000000
0.000000
0.017263
0.000000
0.000000
0.000000
0.016228
0.00000
0.00000
0.00000
Foulkes, J.E.
Prabu-Jeyabalan, M.
Cooper, D.
Schiffer, C.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
50.50
57.93
61.62
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
C11 H19 N O2
197.274
2-METHYL-DECAHYDRO-ISOQUINOLINE-3-CARBOXYLIC ACID
non-polymer
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
C9 H13 N O2
167.205
n
(2S)-2-amino-3-phenylpropane-1,1-diol
(2S)-2-amino-3-phenylpropane-1,1-diol
peptide-like
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 H11 N
73.137
TERTIARY-BUTYLAMINE
non-polymer
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
O4 P -3
94.971
PHOSPHATE ION
non-polymer
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C10 H7 N O2
173.168
quinoline-2-carboxylic acid
non-polymer
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
N
N
2
S
C
N
3
N
C
N
4
N
O
N
5
N
C
N
6
N
O
N
7
N
H
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
N
N
15
S
C
N
16
N
C
N
17
N
O
N
18
N
C
N
19
N
C
N
20
N
C
N
21
N
N
N
22
N
C
N
23
N
N
N
24
N
N
N
25
N
O
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
H
N
39
N
H
N
40
N
H
N
41
N
N
N
42
S
C
N
43
N
C
N
44
N
O
N
45
N
C
N
46
N
C
N
47
N
O
N
48
N
N
N
49
N
O
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
N
N
59
S
C
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
N
64
N
O
N
65
N
O
N
66
N
O
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
R
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
S
N
80
N
O
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
N
N
89
N
C
N
90
S
C
N
91
N
C
N
92
N
O
N
93
N
C
N
94
S
C
N
95
N
C
N
96
N
C
N
97
N
C
N
98
N
C
N
99
S
C
N
100
N
C
N
101
N
O
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
N
N
122
S
C
N
123
N
C
N
124
N
O
N
125
N
C
N
126
N
C
N
127
N
C
N
128
N
O
N
129
N
N
N
130
N
O
N
131
N
H
N
132
N
H
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
C
N
148
N
O
N
149
N
O
N
150
N
O
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
N
N
161
N
C
N
162
N
C
N
163
N
O
N
164
N
O
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
N
N
171
S
C
N
172
N
C
N
173
N
O
N
174
N
C
Y
175
N
C
Y
176
N
N
Y
177
N
C
Y
178
N
C
Y
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
O
N
192
N
H
N
193
N
H
N
194
N
C
N
195
N
O
N
196
S
C
N
197
N
N
N
198
N
C
Y
199
N
C
Y
200
N
C
Y
201
N
C
Y
202
N
C
Y
203
N
C
Y
204
N
C
N
205
N
O
N
206
N
H
N
207
N
H
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
N
N
220
S
C
N
221
N
C
N
222
N
O
N
223
S
C
N
224
N
C
N
225
N
C
N
226
N
C
N
227
N
O
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
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
N
N
242
S
C
N
243
N
C
N
244
N
O
N
245
N
C
N
246
N
C
N
247
N
C
N
248
N
C
N
249
N
O
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
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
N
N
264
S
C
N
265
N
C
N
266
N
O
N
267
N
C
N
268
N
C
N
269
N
C
N
270
N
C
N
271
N
N
N
272
N
O
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
H
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
N
N
289
S
C
N
290
N
C
N
291
N
O
N
292
N
C
N
293
N
C
N
294
N
S
N
295
N
C
N
296
N
O
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
H
N
306
N
H
N
307
N
H
N
308
N
N
N
309
N
C
N
310
N
C
N
311
N
C
N
312
N
C
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
N
N
325
S
C
N
326
N
C
N
327
N
O
N
328
N
C
Y
329
N
C
Y
330
N
C
Y
331
N
C
Y
332
N
C
Y
333
N
C
Y
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
P
N
348
N
O
N
349
N
O
N
350
N
O
N
351
N
O
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
C
N
359
N
O
N
360
N
H
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
C
N
370
N
O
Y
371
N
N
Y
372
N
C
Y
373
N
C
Y
374
N
C
Y
375
N
C
Y
376
N
C
Y
377
N
C
Y
378
N
C
Y
379
N
C
Y
380
N
C
N
381
N
O
N
382
N
H
N
383
N
H
N
384
N
H
N
385
N
H
N
386
N
H
N
387
N
H
N
388
N
H
N
389
N
N
N
390
S
C
N
391
N
C
N
392
N
O
N
393
N
C
N
394
N
O
N
395
N
O
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
N
N
404
S
C
N
405
N
C
N
406
N
O
N
407
R
C
N
408
N
O
N
409
N
C
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
N
N
421
S
C
N
422
N
C
N
423
N
O
N
424
N
C
Y
425
N
C
Y
426
N
C
Y
427
N
C
Y
428
N
N
Y
429
N
C
Y
430
N
C
Y
431
N
C
Y
432
N
C
Y
433
N
C
N
434
N
O
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
H
N
444
N
H
N
445
N
H
N
446
N
H
N
447
N
N
N
448
S
C
N
449
N
C
N
450
N
O
N
451
N
C
Y
452
N
C
Y
453
N
C
Y
454
N
C
Y
455
N
C
Y
456
N
C
Y
457
N
C
N
458
N
O
N
459
N
O
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
H
N
471
N
N
N
472
S
C
N
473
N
C
N
474
N
O
N
475
N
C
N
476
N
C
N
477
N
C
N
478
N
O
N
479
N
H
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
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
doub
N
20
N
sing
N
21
N
sing
N
22
N
sing
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
doub
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
doub
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
doub
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
doub
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
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
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
doub
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
sing
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
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
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
sing
N
142
N
doub
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
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
doub
N
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
doub
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
Y
174
N
sing
Y
175
N
doub
Y
176
N
doub
N
177
N
sing
Y
178
N
sing
N
179
N
sing
Y
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
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
Y
198
N
doub
Y
199
N
sing
Y
200
N
sing
N
201
N
sing
Y
202
N
doub
N
203
N
sing
Y
204
N
doub
N
205
N
sing
Y
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
sing
N
216
N
sing
N
217
N
doub
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
doub
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
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
doub
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
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
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
doub
N
318
N
sing
N
319
N
sing
N
320
N
sing
N
321
N
sing
Y
322
N
doub
Y
323
N
sing
Y
324
N
sing
N
325
N
sing
Y
326
N
doub
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
330
N
sing
N
331
N
sing
N
332
N
sing
N
333
N
sing
N
334
N
doub
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
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
doub
N
357
N
sing
Y
358
N
doub
Y
359
N
sing
Y
360
N
doub
Y
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
Y
365
N
doub
N
366
N
sing
Y
367
N
sing
N
368
N
sing
Y
369
N
doub
Y
370
N
sing
N
371
N
sing
Y
372
N
doub
Y
373
N
sing
Y
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
sing
N
382
N
doub
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
doub
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
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
doub
N
412
N
sing
N
413
N
sing
N
414
N
sing
N
415
N
sing
Y
416
N
doub
Y
417
N
sing
Y
418
N
sing
N
419
N
sing
Y
420
N
doub
Y
421
N
sing
Y
422
N
sing
N
423
N
sing
Y
424
N
sing
Y
425
N
doub
N
426
N
sing
Y
427
N
doub
N
428
N
sing
Y
429
N
sing
N
430
N
sing
N
431
N
sing
N
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
doub
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
Y
444
N
doub
Y
445
N
sing
Y
446
N
sing
N
447
N
sing
Y
448
N
doub
N
449
N
sing
Y
450
N
doub
N
451
N
sing
Y
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
sing
N
462
N
sing
N
463
N
doub
N
464
N
sing
N
465
N
sing
N
466
N
sing
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
US
J.Virol.
JOVIAM
0825
0022-538X
80
6906
6916
10.1128/JVI.01900-05
16809296
Role of invariant Thr80 in human immunodeficiency virus type 1 protease structure, function, and viral infectivity.
2006
10.2210/pdb2fgu/pdb
pdb_00002fgu
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
Osmic Mirrors
IMAGE PLATE
2004-11-05
RIGAKU RAXIS IV
Osmic Mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
10787.736
Protease
3.4.23.16
Q7K, I64V, T80S
2
man
polymer
94.971
PHOSPHATE ION
5
syn
non-polymer
173.168
quinoline-2-carboxylic acid
1
syn
non-polymer
132.118
ASPARAGINE
1
syn
non-polymer
167.205
(2S)-2-amino-3-phenylpropane-1,1-diol
1
syn
non-polymer
197.274
2-METHYL-DECAHYDRO-ISOQUINOLINE-3-CARBOXYLIC ACID
1
syn
non-polymer
73.137
TERTIARY-BUTYLAMINE
1
syn
non-polymer
18.015
water
130
nat
water
Retropepsin, PR
no
no
PQITLWKRPLVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIGGIGGFIKVRQYDQIPVEICGHKAIGTVLVGPS
PVNIIGRNLLTQIGCTLNF
PQITLWKRPLVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIGGIGGFIKVRQYDQIPVEICGHKAIGTVLVGPS
PVNIIGRNLLTQIGCTLNF
A,B
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
SF2
Escherichia
sample
GAG
11676
Human immunodeficiency virus 1
562
Escherichia coli
TAP106
plasmid
pXC35
1
2.09
41.08
VAPOR DIFFUSION, HANGING DROP
5.5
0.126 M Sodium Phosphate pH 6.2, 0.063 M Sodium Citrate, 23-24% Ammonium Sulfate, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
software
database_2
struct_conn
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Non-polymer description
Version format compliance
Refinement description
Database references
Derived calculations
Data collection
Refinement description
1
0
2006-11-07
1
1
2008-05-01
1
2
2011-07-13
1
3
2017-10-18
1
4
2021-10-20
1
5
2023-08-30
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
HETEROGEN
THE ENTIRE CHAIN I IS AN INHIBITOR SAQUINAVIR.
RCSB
Y
RCSB
2005-12-22
REL
REL
PO4
PHOSPHATE ION
QNC
quinoline-2-carboxylic acid
ASN
ASPARAGINE
HPH
(2S)-2-amino-3-phenylpropane-1,1-diol
DIQ
2-METHYL-DECAHYDRO-ISOQUINOLINE-3-CARBOXYLIC ACID
NTB
TERTIARY-BUTYLAMINE
HOH
water
1F7A
pdb entry 1F7A
PDB
experimental model
PO4
501
2
PO4
PO4
501
A
PO4
502
2
PO4
PO4
502
A
PO4
503
2
PO4
PO4
503
A
QNC
1
3
QNC
QNC
504
A
ASN
2
4
ASN
ASN
505
A
HPH
3
5
HPH
HPH
506
A
DIQ
4
6
DIQ
DIQ
507
A
NTB
5
7
NTB
NTB
508
A
PO4
504
2
PO4
PO4
504
B
PO4
505
2
PO4
PO4
505
B
WAT
4
8
HOH
HOH
509
A
WAT
6
8
HOH
HOH
510
A
WAT
8
8
HOH
HOH
511
A
WAT
9
8
HOH
HOH
512
A
WAT
11
8
HOH
HOH
513
A
WAT
12
8
HOH
HOH
514
A
WAT
25
8
HOH
HOH
515
A
WAT
28
8
HOH
HOH
516
A
WAT
33
8
HOH
HOH
517
A
WAT
36
8
HOH
HOH
518
A
WAT
39
8
HOH
HOH
519
A
WAT
40
8
HOH
HOH
520
A
WAT
41
8
HOH
HOH
521
A
WAT
44
8
HOH
HOH
522
A
WAT
47
8
HOH
HOH
523
A
WAT
50
8
HOH
HOH
524
A
WAT
56
8
HOH
HOH
525
A
WAT
59
8
HOH
HOH
526
A
WAT
65
8
HOH
HOH
527
A
WAT
75
8
HOH
HOH
528
A
WAT
79
8
HOH
HOH
529
A
WAT
81
8
HOH
HOH
530
A
WAT
82
8
HOH
HOH
531
A
WAT
85
8
HOH
HOH
532
A
WAT
89
8
HOH
HOH
533
A
WAT
92
8
HOH
HOH
534
A
WAT
99
8
HOH
HOH
535
A
WAT
100
8
HOH
HOH
536
A
WAT
104
8
HOH
HOH
537
A
WAT
106
8
HOH
HOH
538
A
WAT
109
8
HOH
HOH
539
A
WAT
111
8
HOH
HOH
540
A
WAT
112
8
HOH
HOH
541
A
WAT
115
8
HOH
HOH
542
A
WAT
116
8
HOH
HOH
543
A
WAT
123
8
HOH
HOH
544
A
WAT
125
8
HOH
HOH
545
A
WAT
127
8
HOH
HOH
546
A
WAT
128
8
HOH
HOH
547
A
WAT
130
8
HOH
HOH
548
A
WAT
131
8
HOH
HOH
549
A
WAT
134
8
HOH
HOH
550
A
WAT
137
8
HOH
HOH
551
A
WAT
138
8
HOH
HOH
552
A
WAT
143
8
HOH
HOH
553
A
WAT
144
8
HOH
HOH
554
A
WAT
153
8
HOH
HOH
555
A
WAT
154
8
HOH
HOH
556
A
WAT
160
8
HOH
HOH
557
A
WAT
161
8
HOH
HOH
558
A
WAT
163
8
HOH
HOH
559
A
WAT
179
8
HOH
HOH
560
A
WAT
181
8
HOH
HOH
561
A
WAT
182
8
HOH
HOH
562
A
WAT
183
8
HOH
HOH
563
A
WAT
114
8
HOH
HOH
564
A
WAT
185
8
HOH
HOH
565
A
WAT
1
8
HOH
HOH
506
B
WAT
2
8
HOH
HOH
507
B
WAT
13
8
HOH
HOH
508
B
WAT
14
8
HOH
HOH
509
B
WAT
15
8
HOH
HOH
510
B
WAT
23
8
HOH
HOH
511
B
WAT
26
8
HOH
HOH
512
B
WAT
27
8
HOH
HOH
513
B
WAT
31
8
HOH
HOH
514
B
WAT
32
8
HOH
HOH
515
B
WAT
45
8
HOH
HOH
516
B
WAT
49
8
HOH
HOH
517
B
WAT
51
8
HOH
HOH
518
B
WAT
52
8
HOH
HOH
519
B
WAT
53
8
HOH
HOH
520
B
WAT
61
8
HOH
HOH
521
B
WAT
66
8
HOH
HOH
522
B
WAT
67
8
HOH
HOH
523
B
WAT
68
8
HOH
HOH
524
B
WAT
69
8
HOH
HOH
525
B
WAT
70
8
HOH
HOH
526
B
WAT
71
8
HOH
HOH
527
B
WAT
72
8
HOH
HOH
528
B
WAT
76
8
HOH
HOH
529
B
WAT
78
8
HOH
HOH
530
B
WAT
80
8
HOH
HOH
531
B
WAT
83
8
HOH
HOH
532
B
WAT
84
8
HOH
HOH
533
B
WAT
86
8
HOH
HOH
534
B
WAT
90
8
HOH
HOH
535
B
WAT
91
8
HOH
HOH
536
B
WAT
93
8
HOH
HOH
537
B
WAT
96
8
HOH
HOH
538
B
WAT
97
8
HOH
HOH
539
B
WAT
98
8
HOH
HOH
540
B
WAT
101
8
HOH
HOH
541
B
WAT
103
8
HOH
HOH
542
B
WAT
107
8
HOH
HOH
543
B
WAT
108
8
HOH
HOH
544
B
WAT
110
8
HOH
HOH
545
B
WAT
113
8
HOH
HOH
546
B
WAT
118
8
HOH
HOH
547
B
WAT
120
8
HOH
HOH
548
B
WAT
121
8
HOH
HOH
549
B
WAT
122
8
HOH
HOH
550
B
WAT
126
8
HOH
HOH
551
B
WAT
129
8
HOH
HOH
552
B
WAT
132
8
HOH
HOH
553
B
WAT
135
8
HOH
HOH
554
B
WAT
136
8
HOH
HOH
555
B
WAT
139
8
HOH
HOH
556
B
WAT
141
8
HOH
HOH
557
B
WAT
142
8
HOH
HOH
558
B
WAT
145
8
HOH
HOH
559
B
WAT
146
8
HOH
HOH
560
B
WAT
147
8
HOH
HOH
561
B
WAT
148
8
HOH
HOH
562
B
WAT
149
8
HOH
HOH
563
B
WAT
150
8
HOH
HOH
564
B
WAT
152
8
HOH
HOH
565
B
WAT
155
8
HOH
HOH
566
B
WAT
156
8
HOH
HOH
567
B
WAT
157
8
HOH
HOH
568
B
WAT
159
8
HOH
HOH
569
B
WAT
171
8
HOH
HOH
570
B
WAT
172
8
HOH
HOH
571
B
WAT
173
8
HOH
HOH
572
B
WAT
174
8
HOH
HOH
573
B
WAT
175
8
HOH
HOH
574
B
WAT
176
8
HOH
HOH
575
B
WAT
177
8
HOH
HOH
576
B
WAT
178
8
HOH
HOH
577
B
WAT
186
8
HOH
HOH
578
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
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
ALA
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
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
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
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
SER
80
n
80
SER
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
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
ALA
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
ALA
14
n
14
ARG
14
B
ILE
15
n
15
ILE
15
B
GLY
16
n
16
GLY
16
B
GLY
17
n
17
GLY
17
B
ALA
18
n
18
GLN
18
B
LEU
19
n
19
LEU
19
B
LYS
20
n
20
LYS
20
B
ALA
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
ALA
41
n
41
LYS
41
B
TRP
42
n
42
TRP
42
B
ALA
43
n
43
LYS
43
B
PRO
44
n
44
PRO
44
B
ALA
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
ALA
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
PRO
63
n
63
PRO
63
B
VAL
64
n
64
VAL
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
ALA
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
SER
80
n
80
SER
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
author_and_software_defined_assembly
PISA
2
dimeric
6120
-36
9030
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
97
B
O
LEU
97
B
O
ASN
98
B
O
ASN
98
A
N
THR
96
A
N
THR
96
A
N
LEU
97
A
N
LEU
97
B
O
ILE
3
B
O
ILE
3
A
N
LYS
45
A
N
LYS
45
A
O
VAL
56
A
O
VAL
56
A
N
ILE
66
A
N
ILE
66
A
O
HIS
69
A
O
HIS
69
A
O
LEU
76
A
O
LEU
76
A
N
LEU
33
A
N
LEU
33
A
N
VAL
32
A
N
VAL
32
A
O
ILE
84
A
O
ILE
84
A
O
ILE
85
A
O
ILE
85
A
N
LEU
23
A
N
LEU
23
A
O
LYS
20
A
O
LYS
20
A
N
ILE
13
A
N
ILE
13
A
N
ARG
14
A
N
ARG
14
A
O
GLU
65
A
O
GLU
65
B
N
LYS
45
B
N
LYS
45
B
O
VAL
56
B
O
VAL
56
B
N
ILE
66
B
N
ILE
66
B
O
HIS
69
B
O
HIS
69
B
O
LEU
76
B
O
LEU
76
B
N
LEU
33
B
N
LEU
33
B
N
VAL
32
B
N
VAL
32
B
O
ILE
84
B
O
ILE
84
B
O
ILE
85
B
O
ILE
85
B
N
LEU
23
B
N
LEU
23
B
O
LYS
20
B
O
LYS
20
B
N
ILE
13
B
N
ILE
13
B
N
ARG
14
B
N
ARG
14
B
O
GLU
65
B
O
GLU
65
1
A
CG
GLN
18
A
CG
GLN
18
1
Y
1
A
CD
GLN
18
A
CD
GLN
18
1
Y
1
A
OE1
GLN
18
A
OE1
GLN
18
1
Y
1
A
NE2
GLN
18
A
NE2
GLN
18
1
Y
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
B
CG
LYS
7
B
CG
LYS
7
1
Y
1
B
CD
LYS
7
B
CD
LYS
7
1
Y
1
B
CE
LYS
7
B
CE
LYS
7
1
Y
1
B
NZ
LYS
7
B
NZ
LYS
7
1
Y
1
B
CG
ARG
14
B
CG
ARG
14
1
Y
1
B
CD
ARG
14
B
CD
ARG
14
1
Y
1
B
NE
ARG
14
B
NE
ARG
14
1
Y
1
B
CZ
ARG
14
B
CZ
ARG
14
1
Y
1
B
NH1
ARG
14
B
NH1
ARG
14
1
Y
1
B
NH2
ARG
14
B
NH2
ARG
14
1
Y
1
B
CG
GLN
18
B
CG
GLN
18
1
Y
1
B
CD
GLN
18
B
CD
GLN
18
1
Y
1
B
OE1
GLN
18
B
OE1
GLN
18
1
Y
1
B
NE2
GLN
18
B
NE2
GLN
18
1
Y
1
B
CG
GLU
21
B
CG
GLU
21
1
Y
1
B
CD
GLU
21
B
CD
GLU
21
1
Y
1
B
OE1
GLU
21
B
OE1
GLU
21
1
Y
1
B
OE2
GLU
21
B
OE2
GLU
21
1
Y
1
B
CG
LYS
41
B
CG
LYS
41
1
Y
1
B
CD
LYS
41
B
CD
LYS
41
1
Y
1
B
CE
LYS
41
B
CE
LYS
41
1
Y
1
B
NZ
LYS
41
B
NZ
LYS
41
1
Y
1
B
CG
LYS
43
B
CG
LYS
43
1
Y
1
B
CD
LYS
43
B
CD
LYS
43
1
Y
1
B
CE
LYS
43
B
CE
LYS
43
1
Y
1
B
NZ
LYS
43
B
NZ
LYS
43
1
Y
1
B
CG
LYS
45
B
CG
LYS
45
1
Y
1
B
CD
LYS
45
B
CD
LYS
45
1
Y
1
B
CE
LYS
45
B
CE
LYS
45
1
Y
1
B
NZ
LYS
45
B
NZ
LYS
45
1
Y
1
B
CG
ARG
57
B
CG
ARG
57
1
Y
1
B
CD
ARG
57
B
CD
ARG
57
1
Y
1
B
NE
ARG
57
B
NE
ARG
57
1
Y
1
B
CZ
ARG
57
B
CZ
ARG
57
1
Y
1
B
NH1
ARG
57
B
NH1
ARG
57
1
Y
1
B
NH2
ARG
57
B
NH2
ARG
57
1
Y
1
B
CG
LYS
70
B
CG
LYS
70
1
Y
1
B
CD
LYS
70
B
CD
LYS
70
1
Y
1
B
CE
LYS
70
B
CE
LYS
70
1
Y
1
B
NZ
LYS
70
B
NZ
LYS
70
1
Y
1
A
A
O
N
QNC
ASN
504
505
2.08
21.948
-0.73
0.00
0.00
0.52
0.00
0.21
0.957
0.930
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.23235
0.1764
0.1791
0.17911
2.00
42.22
612
12625
11977
4.9
99.09
4.559
0.127
RANDOM
1
Isotropic
THROUGHOUT
0
0
MOLECULAR REPLACEMENT
0.205
0.178
0.80
0.80
1.20
pdb entry 1F7A
MAXIMUM LIKELIHOOD
BABINET MODEL WITH MASK
2.00
42.22
130
1666
74
0
1462
0.008
0.022
1589
0.000
0.020
1518
1.613
2.027
2178
0.679
3.000
3519
6.942
5.000
200
42.207
25.000
50
12.644
15.000
245
27.859
15.000
6
0.093
0.200
256
0.004
0.020
1719
0.001
0.020
285
0.199
0.300
231
0.213
0.300
1461
0.176
0.500
757
0.092
0.500
954
0.190
0.500
153
0.073
0.500
1
0.062
0.300
11
0.177
0.300
77
0.216
0.500
22
1.200
1.500
1259
0.263
1.500
416
1.443
2.000
1601
2.217
3.000
711
3.321
4.500
577
0.331
0.235
2.052
47
783
20
90.91
2.0
42.22
2FGU
12625
12625
0
0
0.073
0.073
1
8.2
7.0
99.1
refinement
REFMAC
5.2.0005
data scaling
SCALEPACK
phasing
AMoRE
X-ray crystal structure of HIV-1 Protease T80S variant in complex with the inhibitor saquinavir used to explore the role of invariant Thr80 in HIV-1 protease structure, function, and viral infectivity.
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
5
N
N
6
N
N
7
N
N
2
N
N
2
N
N
8
N
N
8
N
N
The entire HIV-1 protease dimer in complex with the inhibitor saquinavir.
A
GLY
86
A
GLY
86
HELX_P
A
THR
91
A
THR
91
1
1
6
B
GLY
86
B
GLY
86
HELX_P
B
THR
91
B
THR
91
1
2
6
covale
1.336
both
A
QNC
504
F
C
QNC
1_555
A
ASN
505
G
N
ASN
1_555
covale
1.346
one
A
ASN
505
G
C
ASN
1_555
A
HPH
506
H
N
HPH
1_555
covale
1.345
none
A
HPH
506
H
C
HPH
1_555
A
DIQ
507
I
CM
DIQ
1_555
covale
1.345
one
A
DIQ
507
I
C
DIQ
1_555
A
NTB
508
J
N
NTB
1_555
HYDROLASE
HIV Protease, drug resistance, enzyme kinetics, sequence conservation, protein structure, HYDROLASE
O38716_9HIV1
UNP
1
1
O38716
1
99
2FGU
1
99
O38716
A
1
1
99
1
99
2FGU
1
99
O38716
B
1
1
99
1
GLN
engineered mutation
LYS
7
2FGU
A
O38716
UNP
7
7
1
ILE
engineered mutation
VAL
64
2FGU
A
O38716
UNP
64
64
1
THR
engineered mutation
SER
80
2FGU
A
O38716
UNP
80
80
2
GLN
engineered mutation
LYS
7
2FGU
B
O38716
UNP
7
7
2
ILE
engineered mutation
VAL
64
2FGU
B
O38716
UNP
64
64
2
THR
engineered mutation
SER
80
2FGU
B
O38716
UNP
80
80
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
A
GLN
2
A
GLN
2
A
ILE
3
A
ILE
3
B
THR
96
B
THR
96
B
ASN
98
B
ASN
98
A
THR
96
A
THR
96
A
ASN
98
A
ASN
98
B
GLN
2
B
GLN
2
B
ILE
3
B
ILE
3
A
LYS
43
A
LYS
43
A
GLY
49
A
GLY
49
A
GLY
52
A
GLY
52
A
ILE
66
A
ILE
66
A
HIS
69
A
HIS
69
A
VAL
77
A
VAL
77
A
VAL
32
A
VAL
32
A
LEU
33
A
LEU
33
A
ASN
83
A
ASN
83
A
ILE
85
A
ILE
85
A
GLN
18
A
GLN
18
A
LEU
24
A
LEU
24
A
LEU
10
A
LEU
10
A
ILE
15
A
ILE
15
A
GLY
52
A
GLY
52
A
ILE
66
A
ILE
66
B
LYS
43
B
LYS
43
B
GLY
49
B
GLY
49
B
GLY
52
B
GLY
52
B
ILE
66
B
ILE
66
B
HIS
69
B
HIS
69
B
VAL
77
B
VAL
77
B
VAL
32
B
VAL
32
B
LEU
33
B
LEU
33
B
ILE
84
B
ILE
84
B
ILE
85
B
ILE
85
B
GLN
18
B
GLN
18
B
LEU
24
B
LEU
24
B
LEU
10
B
LEU
10
B
ILE
15
B
ILE
15
B
GLY
52
B
GLY
52
B
ILE
66
B
ILE
66
BINDING SITE FOR RESIDUE PO4 A 501
A
PO4
501
Software
6
BINDING SITE FOR RESIDUE PO4 A 502
A
PO4
502
Software
5
BINDING SITE FOR RESIDUE PO4 A 503
A
PO4
503
Software
7
BINDING SITE FOR RESIDUE PO4 B 504
B
PO4
504
Software
5
BINDING SITE FOR RESIDUE PO4 B 505
B
PO4
505
Software
5
BINDING SITE FOR RESIDUE QNC A 504
A
QNC
504
Software
10
BINDING SITE FOR RESIDUE ASN A 505
A
ASN
505
Software
9
BINDING SITE FOR RESIDUE HPH A 506
A
HPH
506
Software
10
BINDING SITE FOR RESIDUE DIQ A 507
A
DIQ
507
Software
8
BINDING SITE FOR RESIDUE NTB A 508
A
NTB
508
Software
4
A
ARG
14
A
ARG
14
6
1_555
A
GLY
17
A
GLY
17
6
1_555
A
PRO
63
A
PRO
63
6
1_555
A
HOH
522
M
HOH
6
1_555
A
HOH
529
M
HOH
6
1_555
B
HOH
544
N
HOH
6
1_455
A
GLY
73
A
GLY
73
5
1_555
A
THR
74
A
THR
74
5
1_555
A
ASN
88
A
ASN
88
5
1_555
A
GLN
92
A
GLN
92
5
1_555
A
HOH
565
M
HOH
5
1_555
A
PRO
1
A
PRO
1
7
1_555
A
LYS
55
A
LYS
55
7
2_554
B
HIS
69
B
HIS
69
7
4_455
B
LYS
70
B
LYS
70
7
4_455
B
PHE
99
B
PHE
99
7
1_555
B
HOH
563
N
HOH
7
4_455
B
HOH
577
N
HOH
7
4_455
A
PRO
39
A
PRO
39
5
1_655
A
GLY
40
A
GLY
40
5
1_655
B
MET
36
B
MET
36
5
1_555
B
ASN
37
B
ASN
37
5
1_555
B
HOH
549
N
HOH
5
1_555
B
LYS
20
B
LYS
20
5
1_555
B
GLU
21
B
GLU
21
5
1_555
B
ASN
83
B
ASN
83
5
1_555
B
HOH
528
N
HOH
5
1_555
B
HOH
542
N
HOH
5
1_555
A
TRP
6
A
TRP
6
10
3_645
A
GLY
27
A
GLY
27
10
1_555
A
ALA
28
A
ALA
28
10
1_555
A
ASP
29
A
ASP
29
10
1_555
A
GLY
48
A
GLY
48
10
1_555
A
ASN
505
G
ASN
10
1_555
A
HPH
506
H
HPH
10
1_555
A
HOH
524
M
HOH
10
1_555
B
ARG
8
B
ARG
8
10
1_555
B
PRO
81
B
PRO
81
10
1_555
A
ALA
28
A
ALA
28
9
1_555
A
ASP
29
A
ASP
29
9
1_555
A
ASP
30
A
ASP
30
9
1_555
A
GLY
48
A
GLY
48
9
1_555
A
QNC
504
F
QNC
9
1_555
A
HPH
506
H
HPH
9
1_555
A
HOH
510
M
HOH
9
1_555
A
HOH
530
M
HOH
9
1_555
B
ILE
50
B
ILE
50
9
1_555
A
ASP
25
A
ASP
25
10
1_555
A
GLY
27
A
GLY
27
10
1_555
A
GLY
49
A
GLY
49
10
1_555
A
ILE
50
A
ILE
50
10
1_555
A
QNC
504
F
QNC
10
1_555
A
ASN
505
G
ASN
10
1_555
A
DIQ
507
I
DIQ
10
1_555
B
ASP
25
B
ASP
25
10
1_555
B
PRO
81
B
PRO
81
10
1_555
B
ILE
84
B
ILE
84
10
1_555
A
ASP
25
A
ASP
25
8
1_555
A
PRO
81
A
PRO
81
8
1_555
A
ILE
84
A
ILE
84
8
1_555
A
HPH
506
H
HPH
8
1_555
A
NTB
508
J
NTB
8
1_555
A
HOH
510
M
HOH
8
1_555
B
ASP
25
B
ASP
25
8
1_555
B
GLY
27
B
GLY
27
8
1_555
A
DIQ
507
I
DIQ
4
1_555
A
HOH
518
M
HOH
4
1_555
B
ALA
28
B
ALA
28
4
1_555
B
GLY
48
B
GLY
48
4
1_555
19
P 21 21 21