0.019545
0.000000
0.000000
0.000000
0.016866
0.000000
0.000000
0.000000
0.016290
0.000000
0.000000
0.000000
Prabu-Jeyabalan, M.
King, N.M.
Schiffer, C.A.
Nalivaika, E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.000
90.000
90.000
51.164
59.291
61.389
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
O4 P -3
94.971
PHOSPHATE ION
non-polymer
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C38 H50 N6 O5
670.841
(2S)-N-[(2S,3R)-4-[(2S,3S,4aS,8aS)-3-(tert-butylcarbamoyl)-3,4,4a,5,6,7,8,8a-octahydro-1H-isoquinolin-2-yl]-3-hydroxy-1 -phenyl-butan-2-yl]-2-(quinolin-2-ylcarbonylamino)butanediamide
Fortovase; SAQUINAVIR; RO 31-8959
peptide-like
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
S
C
N
90
N
C
N
91
N
O
N
92
N
C
N
93
N
C
N
94
N
C
N
95
N
O
N
96
N
N
N
97
N
O
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
N
N
109
S
C
N
110
N
C
N
111
N
O
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
O
N
116
N
O
N
117
N
O
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
H
N
125
N
H
N
126
N
H
N
127
N
N
N
128
N
C
N
129
N
C
N
130
N
O
N
131
N
O
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
N
N
138
S
C
N
139
N
C
N
140
N
O
N
141
N
C
Y
142
N
C
Y
143
N
N
Y
144
N
C
Y
145
N
C
Y
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
O
N
159
N
H
N
160
N
H
N
161
N
N
N
162
S
C
N
163
N
C
N
164
N
O
N
165
S
C
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
O
N
170
N
H
N
171
N
H
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
H
N
181
N
H
N
182
N
H
N
183
N
N
N
184
S
C
N
185
N
C
N
186
N
O
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
C
N
191
N
O
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
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
N
N
206
S
C
N
207
N
C
N
208
N
O
N
209
N
C
N
210
N
C
N
211
N
C
N
212
N
C
N
213
N
N
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
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
S
N
237
N
C
N
238
N
O
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
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
N
N
251
S
C
N
252
N
C
N
253
N
O
N
254
N
C
Y
255
N
C
Y
256
N
C
Y
257
N
C
Y
258
N
C
Y
259
N
C
Y
260
N
C
N
261
N
O
N
262
N
H
N
263
N
H
N
264
N
H
N
265
N
H
N
266
N
H
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
P
N
274
N
O
N
275
N
O
N
276
N
O
N
277
N
O
N
278
N
N
N
279
S
C
N
280
N
C
N
281
N
O
N
282
N
C
N
283
N
C
N
284
N
C
N
285
N
O
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
H
N
293
N
H
N
294
N
H
N
295
N
C
N
296
N
O
Y
297
N
N
Y
298
N
C
Y
299
N
C
Y
300
N
C
Y
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
Y
306
N
C
N
307
N
N
N
308
S
C
N
309
N
C
N
310
N
O
N
311
N
C
N
312
N
C
N
313
N
O
N
314
N
N
N
315
R
C
N
316
N
O
N
317
S
C
N
318
N
N
N
319
N
C
Y
320
N
C
Y
321
N
C
Y
322
N
C
Y
323
N
C
Y
324
N
C
Y
325
N
C
N
326
N
N
N
327
N
C
N
328
S
C
N
329
N
C
N
330
N
O
N
331
N
C
N
332
S
C
N
333
N
C
N
334
N
C
N
335
N
C
N
336
N
C
N
337
S
C
N
338
N
C
N
339
N
N
N
340
N
C
N
341
N
C
N
342
N
C
N
343
N
C
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
H
N
353
N
H
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
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
H
N
373
N
H
N
374
N
H
N
375
N
H
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
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
N
N
395
S
C
N
396
N
C
N
397
N
O
N
398
R
C
N
399
N
O
N
400
N
C
N
401
N
O
N
402
N
H
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
N
N
412
S
C
N
413
N
C
N
414
N
O
N
415
N
C
Y
416
N
C
Y
417
N
C
Y
418
N
C
Y
419
N
N
Y
420
N
C
Y
421
N
C
Y
422
N
C
Y
423
N
C
Y
424
N
C
N
425
N
O
N
426
N
H
N
427
N
H
N
428
N
H
N
429
N
H
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
N
N
439
S
C
N
440
N
C
N
441
N
O
N
442
N
C
Y
443
N
C
Y
444
N
C
Y
445
N
C
Y
446
N
C
Y
447
N
C
Y
448
N
C
N
449
N
O
N
450
N
O
N
451
N
H
N
452
N
H
N
453
N
H
N
454
N
H
N
455
N
H
N
456
N
H
N
457
N
H
N
458
N
H
N
459
N
H
N
460
N
H
N
461
N
H
N
462
N
N
N
463
S
C
N
464
N
C
N
465
N
O
N
466
N
C
N
467
N
C
N
468
N
C
N
469
N
O
N
470
N
H
N
471
N
H
N
472
N
H
N
473
N
H
N
474
N
H
N
475
N
H
N
476
N
H
N
477
N
H
N
478
N
H
N
479
N
H
N
480
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
doub
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
doub
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
doub
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
doub
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
doub
N
127
N
sing
N
128
N
sing
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
doub
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
Y
140
N
sing
Y
141
N
doub
Y
142
N
doub
N
143
N
sing
Y
144
N
sing
N
145
N
sing
Y
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
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
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
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
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
doub
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
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
doub
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
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
doub
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
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
doub
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
Y
248
N
doub
Y
249
N
sing
Y
250
N
sing
N
251
N
sing
Y
252
N
doub
N
253
N
sing
Y
254
N
doub
N
255
N
sing
Y
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
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
sing
N
270
N
doub
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
doub
N
282
N
sing
Y
283
N
doub
Y
284
N
sing
Y
285
N
sing
Y
286
N
doub
N
287
N
sing
Y
288
N
sing
N
289
N
sing
Y
290
N
doub
Y
291
N
sing
Y
292
N
sing
N
293
N
sing
Y
294
N
doub
N
295
N
sing
Y
296
N
sing
N
297
N
sing
Y
298
N
doub
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
doub
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
doub
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
sing
Y
324
N
doub
Y
325
N
sing
Y
326
N
sing
N
327
N
sing
Y
328
N
doub
N
329
N
sing
Y
330
N
doub
N
331
N
sing
Y
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
doub
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
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
N
362
N
sing
N
363
N
sing
N
364
N
sing
N
365
N
sing
N
366
N
sing
N
367
N
sing
N
368
N
sing
N
369
N
sing
N
370
N
sing
N
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
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
sing
N
389
N
sing
N
390
N
doub
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
sing
N
405
N
sing
N
406
N
doub
N
407
N
sing
N
408
N
sing
N
409
N
sing
N
410
N
sing
Y
411
N
doub
Y
412
N
sing
Y
413
N
sing
N
414
N
sing
Y
415
N
doub
Y
416
N
sing
Y
417
N
sing
N
418
N
sing
Y
419
N
sing
Y
420
N
doub
N
421
N
sing
Y
422
N
doub
N
423
N
sing
Y
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
sing
N
434
N
doub
N
435
N
sing
N
436
N
sing
N
437
N
sing
N
438
N
sing
Y
439
N
doub
Y
440
N
sing
Y
441
N
sing
N
442
N
sing
Y
443
N
doub
N
444
N
sing
Y
445
N
doub
N
446
N
sing
Y
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
N
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
doub
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
sing
N
467
N
sing
N
468
N
sing
N
469
N
sing
US
Acs Chem.Biol.
1554-8929
7
1536
1546
10.1021/cb300191k
22712830
Extreme Entropy-Enthalpy Compensation in a Drug-Resistant Variant of HIV-1 Protease.
2012
10.2210/pdb3ekq/pdb
pdb_00003ekq
300
1
Yale Mirrors
IMAGE PLATE
2008-01-28
RIGAKU RAXIS IV
Yale mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU
10845.814
Protease
3.4.23.16
UNP residues 491-589
Q7K, L10I, G48V, I54V, V64I, V82T
2
man
polymer
670.841
(2S)-N-[(2S,3R)-4-[(2S,3S,4aS,8aS)-3-(tert-butylcarbamoyl)-3,4,4a,5,6,7,8,8a-octahydro-1H-isoquinolin-2-yl]-3-hydroxy-1 -phenyl-butan-2-yl]-2-(quinolin-2-ylcarbonylamino)butanediamide
1
syn
non-polymer
94.971
PHOSPHATE ION
2
syn
non-polymer
18.015
water
74
nat
water
Retropepsin, PR
no
no
PQITLWKRPIVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIVGIGGFVKVRQYDQIPIEICGHKAIGTVLVGPT
PTNIIGRNLLTQIGCTLNF
PQITLWKRPIVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIVGIGGFVKVRQYDQIPIEICGHKAIGTVLVGPT
PTNIIGRNLLTQIGCTLNF
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
HIV-1
HXB2
sample
gag-pol
11685
HIV-1 M:B_ARV2/SF2
562
Escherichia coli
TAP106
Plasmid
PXC35
1
2.15
42.69
VAPOR DIFFUSION, HANGING DROP
6.2
pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 300K
300
pdbx_unobs_or_zero_occ_atoms
software
chem_comp
database_2
entity
pdbx_entity_nonpoly
pdbx_unobs_or_zero_occ_atoms
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Advisory
Atomic model
Database references
Derived calculations
Non-polymer description
Refinement description
Structure summary
Version format compliance
Database references
Database references
Other
Advisory
Refinement description
Advisory
Database references
Derived calculations
Structure summary
Data collection
Refinement description
1
0
2009-09-01
1
1
2011-07-13
1
2
2012-07-25
1
3
2012-10-17
1
4
2013-02-27
1
5
2017-10-25
1
6
2021-10-20
1
7
2023-08-30
_chem_comp.name
_chem_comp.pdbx_synonyms
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_entity.pdbx_description
_pdbx_entity_nonpoly.name
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2008-09-19
REL
REL
ROC
(2S)-N-[(2S,3R)-4-[(2S,3S,4aS,8aS)-3-(tert-butylcarbamoyl)-3,4,4a,5,6,7,8,8a-octahydro-1H-isoquinolin-2-yl]-3-hydroxy-1 -phenyl-butan-2-yl]-2-(quinolin-2-ylcarbonylamino)butanediamide
PO4
PHOSPHATE ION
HOH
water
THE INHIBITOR ROC IS A HYDROXYETHYLAMINE CONTAINING
TRANSITION STATE MIMETIC.
1F7A
PDB ENTRY 1F7A
PDB
experimental model
Inhibitor
Saquinavir
Peptide-like
QNC
1
2
ROC
ROC
100
A
PO4
502
3
PO4
PO4
502
A
PO4
501
3
PO4
PO4
501
B
WAT
2
4
HOH
HOH
503
A
WAT
3
4
HOH
HOH
504
A
WAT
4
4
HOH
HOH
505
A
WAT
6
4
HOH
HOH
506
A
WAT
7
4
HOH
HOH
507
A
WAT
8
4
HOH
HOH
508
A
WAT
9
4
HOH
HOH
509
A
WAT
11
4
HOH
HOH
510
A
WAT
15
4
HOH
HOH
511
A
WAT
20
4
HOH
HOH
512
A
WAT
22
4
HOH
HOH
513
A
WAT
23
4
HOH
HOH
514
A
WAT
24
4
HOH
HOH
515
A
WAT
25
4
HOH
HOH
516
A
WAT
26
4
HOH
HOH
517
A
WAT
27
4
HOH
HOH
518
A
WAT
28
4
HOH
HOH
519
A
WAT
29
4
HOH
HOH
520
A
WAT
30
4
HOH
HOH
521
A
WAT
31
4
HOH
HOH
522
A
WAT
32
4
HOH
HOH
523
A
WAT
33
4
HOH
HOH
524
A
WAT
34
4
HOH
HOH
525
A
WAT
35
4
HOH
HOH
526
A
WAT
36
4
HOH
HOH
527
A
WAT
37
4
HOH
HOH
528
A
WAT
39
4
HOH
HOH
529
A
WAT
41
4
HOH
HOH
530
A
WAT
42
4
HOH
HOH
531
A
WAT
51
4
HOH
HOH
532
A
WAT
52
4
HOH
HOH
533
A
WAT
53
4
HOH
HOH
534
A
WAT
54
4
HOH
HOH
535
A
WAT
55
4
HOH
HOH
536
A
WAT
56
4
HOH
HOH
537
A
WAT
71
4
HOH
HOH
538
A
WAT
72
4
HOH
HOH
539
A
WAT
73
4
HOH
HOH
540
A
WAT
74
4
HOH
HOH
541
A
WAT
75
4
HOH
HOH
542
A
WAT
76
4
HOH
HOH
543
A
WAT
77
4
HOH
HOH
544
A
WAT
78
4
HOH
HOH
545
A
WAT
81
4
HOH
HOH
546
A
WAT
83
4
HOH
HOH
547
A
WAT
84
4
HOH
HOH
548
A
WAT
10
4
HOH
HOH
549
A
WAT
5
4
HOH
HOH
506
B
WAT
46
4
HOH
HOH
507
B
WAT
79
4
HOH
HOH
508
B
WAT
80
4
HOH
HOH
509
B
WAT
82
4
HOH
HOH
510
B
WAT
85
4
HOH
HOH
511
B
WAT
1
4
HOH
HOH
512
B
WAT
12
4
HOH
HOH
513
B
WAT
13
4
HOH
HOH
514
B
WAT
14
4
HOH
HOH
515
B
WAT
16
4
HOH
HOH
516
B
WAT
17
4
HOH
HOH
517
B
WAT
18
4
HOH
HOH
518
B
WAT
19
4
HOH
HOH
519
B
WAT
38
4
HOH
HOH
520
B
WAT
58
4
HOH
HOH
521
B
WAT
60
4
HOH
HOH
522
B
WAT
61
4
HOH
HOH
523
B
WAT
62
4
HOH
HOH
524
B
WAT
63
4
HOH
HOH
525
B
WAT
64
4
HOH
HOH
526
B
WAT
65
4
HOH
HOH
527
B
WAT
66
4
HOH
HOH
528
B
WAT
67
4
HOH
HOH
529
B
WAT
68
4
HOH
HOH
530
B
WAT
69
4
HOH
HOH
531
B
WAT
70
4
HOH
HOH
532
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
ALA
7
n
7
LYS
7
A
ARG
8
n
8
ARG
8
A
PRO
9
n
9
PRO
9
A
ILE
10
n
10
ILE
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
LYS
45
n
45
LYS
45
A
MET
46
n
46
MET
46
A
ILE
47
n
47
ILE
47
A
VAL
48
n
48
VAL
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
VAL
54
n
54
VAL
54
A
ALA
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
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
ALA
82
n
82
THR
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
ILE
10
n
10
ILE
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
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
ALA
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
LYS
45
n
45
LYS
45
B
MET
46
n
46
MET
46
B
ILE
47
n
47
ILE
47
B
VAL
48
n
48
VAL
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
VAL
54
n
54
VAL
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
PRO
63
n
63
PRO
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
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
THR
80
n
80
THR
80
B
PRO
81
n
81
PRO
81
B
ALA
82
n
82
THR
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
4.2750
2.7027
0.0999
7.5149
0.0582
0.4083
-0.1426
0.4732
0.4162
-0.6332
0.1385
0.2435
-0.0172
-0.2500
0.0041
0.0031
-0.0802
-0.0645
0.0052
0.0314
-0.0972
refined
20.2272
8.9636
2.5108
X-RAY DIFFRACTION
12.2035
-3.3844
-1.7160
1.9351
0.0026
0.4661
-0.3962
-0.5679
0.2745
0.0146
0.4136
-0.2390
0.1819
0.0818
-0.0174
-0.0144
-0.0178
0.0087
-0.0315
-0.0242
-0.0329
refined
28.6078
9.4922
12.1298
X-RAY DIFFRACTION
5.6208
3.9950
0.4607
4.9133
-0.6287
0.4786
-0.4040
0.7706
-0.2739
-0.1703
0.0743
0.5712
0.6178
-0.3841
0.3297
-0.0746
-0.0544
-0.0396
0.0677
-0.0622
-0.0914
refined
11.9680
-0.3245
4.8674
X-RAY DIFFRACTION
29.3749
10.6233
6.4842
11.8391
1.7662
1.4732
0.4616
-1.2747
0.0634
0.7436
-0.5552
0.3759
0.2606
-0.4565
0.0936
-0.0306
-0.0220
0.0220
-0.0166
-0.0111
-0.1221
refined
25.8005
-1.0047
26.3472
X-RAY DIFFRACTION
5.9051
2.5366
1.1991
5.9736
1.4423
1.5150
0.1515
-0.1992
-0.0003
0.5143
0.0201
0.5660
0.1758
0.1678
-0.1716
-0.1038
-0.0132
-0.0092
-0.0995
0.0165
0.0997
refined
15.2521
-10.5785
19.4980
X-RAY DIFFRACTION
3.0926
-1.5678
0.4809
3.5720
-0.0234
0.0923
0.0157
-0.1459
-0.0576
-0.1341
-0.1082
0.0422
0.4332
-0.0342
0.0925
-0.0365
-0.0016
-0.0070
-0.0468
0.0110
0.0199
refined
29.8621
-3.7834
16.4627
X-RAY DIFFRACTION
6.8730
-2.5731
1.0216
13.0735
3.1754
1.1971
0.2038
-0.7587
-0.3951
1.7455
0.0516
0.8200
-0.7089
0.1804
-0.2554
0.0227
-0.0725
0.0208
-0.0329
0.0838
0.0325
refined
10.5478
0.0829
18.9099
X-RAY DIFFRACTION
7.1636
-0.2318
-0.6286
5.1256
-1.0033
0.2599
0.0024
-0.1041
-0.1785
0.0514
-0.0220
0.2198
-0.0443
0.1894
0.0196
-0.0681
-0.0066
-0.0096
-0.0146
-0.0215
0.0200
refined
25.1494
4.2495
13.2486
X-RAY DIFFRACTION
10.0186
-2.4333
1.1927
5.1849
-0.4274
0.1461
-0.2772
-0.0540
-0.1564
-0.2057
-0.0564
-0.0484
0.0836
-0.0302
0.3336
-0.0442
0.0104
-0.0115
-0.0238
-0.0614
-0.0551
refined
15.3081
0.4111
10.2496
X-RAY DIFFRACTION
20.5527
-3.1504
-0.2268
13.4555
-2.1177
0.3596
-0.2209
-0.9087
-0.7591
0.4887
0.4670
0.8363
-0.5022
0.3530
-0.2461
0.0603
-0.0297
-0.0120
0.0664
0.0922
0.1203
refined
19.8884
-0.5903
18.0082
X-RAY DIFFRACTION
A
1
A
5
X-RAY DIFFRACTION
1
B
1
B
5
X-RAY DIFFRACTION
1
A
94
A
99
X-RAY DIFFRACTION
1
B
94
B
99
X-RAY DIFFRACTION
1
A
86
A
92
X-RAY DIFFRACTION
2
B
86
B
92
X-RAY DIFFRACTION
3
A
44
A
55
X-RAY DIFFRACTION
4
B
44
B
55
X-RAY DIFFRACTION
5
A
77
A
85
X-RAY DIFFRACTION
6
B
77
B
85
X-RAY DIFFRACTION
7
A
24
A
31
X-RAY DIFFRACTION
8
B
24
B
31
X-RAY DIFFRACTION
9
A
100
A
100
X-RAY DIFFRACTION
10
author_and_software_defined_assembly
PISA
2
dimeric
5010
-26
8950
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
THR
96
B
O
THR
96
A
N
ASN
98
A
N
ASN
98
A
N
LEU
97
A
N
LEU
97
B
O
ILE
3
B
O
ILE
3
A
N
LYS
43
A
N
LYS
43
A
O
GLN
58
A
O
GLN
58
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
43
B
N
LYS
43
B
O
GLN
58
B
O
GLN
58
B
N
ILE
64
B
N
ILE
64
B
O
ALA
71
B
O
ALA
71
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
LYS
7
A
CG
LYS
7
1
Y
1
A
CD
LYS
7
A
CD
LYS
7
1
Y
1
A
CE
LYS
7
A
CE
LYS
7
1
Y
1
A
NZ
LYS
7
A
NZ
LYS
7
1
Y
1
A
NE
ARG
14
A
NE
ARG
14
0
Y
1
A
CZ
ARG
14
A
CZ
ARG
14
0
Y
1
A
NH1
ARG
14
A
NH1
ARG
14
0
Y
1
A
NH2
ARG
14
A
NH2
ARG
14
0
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
A
CG
LYS
55
A
CG
LYS
55
1
Y
1
A
CD
LYS
55
A
CD
LYS
55
1
Y
1
A
CE
LYS
55
A
CE
LYS
55
1
Y
1
A
NZ
LYS
55
A
NZ
LYS
55
1
Y
1
A
OG1
THR
82
A
OG1
THR
82
1
Y
1
A
CG2
THR
82
A
CG2
THR
82
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
CD
GLU
35
B
CD
GLU
35
0
Y
1
B
OE1
GLU
35
B
OE1
GLU
35
0
Y
1
B
OE2
GLU
35
B
OE2
GLU
35
0
Y
1
B
CG
ASN
37
B
CG
ASN
37
1
Y
1
B
OD1
ASN
37
B
OD1
ASN
37
1
Y
1
B
ND2
ASN
37
B
ND2
ASN
37
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
CD
GLN
61
B
CD
GLN
61
0
Y
1
B
OE1
GLN
61
B
OE1
GLN
61
0
Y
1
B
NE2
GLN
61
B
NE2
GLN
61
0
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
B
OG1
THR
82
B
OG1
THR
82
1
Y
1
B
CG2
THR
82
B
CG2
THR
82
1
Y
1
A
PRO
79
-79.30
49.36
1
B
GLU
34
-55.82
174.24
56.39
34.606
17.31
-1.140
0.000
0.000
-1.190
0.000
2.330
0.954
0.917
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.246
0.195
0.197
2.200
20.000
467
9751
4.800
98.380
1.00
0.00
9.298
0.182
RANDOM
LIKELY RESIDUAL
1
THROUGHOUT
0.00
0.334
0.232
0.800
0.800
1.200
PDB ENTRY 1F7A
MAXIMUM LIKELIHOOD
MASK
2.200
20.000
74
1610
59
0
1477
0.008
0.022
1583
0.005
0.020
1523
1.273
2.015
2170
0.714
3.000
3527
6.953
5.000
200
40.441
25.098
51
13.593
15.000
246
14.060
15.000
6
0.077
0.200
259
0.004
0.020
1723
0.001
0.020
285
0.179
0.200
208
0.205
0.200
1478
0.169
0.200
719
0.087
0.200
888
0.158
0.200
64
0.032
0.200
1
0.167
0.200
6
0.147
0.200
46
0.072
0.200
2
1.063
1.500
1276
0.124
1.500
414
1.022
2.000
1610
1.660
3.000
704
2.212
4.500
560
0.362
0.226
2.257
30
594
624
20
88.010
2.0
42
3EKQ
12975
12975
0
0
0.07
0.07
1
6.0
6.6
97.2
refinement
Garib N. Murshudov
garib@ysbl.york.ac.uk
Fortran_77
http://www.ccp4.ac.uk/dist/html/refmac5.html
REFMAC
program
5.2.0005
data extraction
PDB
help@deposit.rcsb.org
June 11, 2008
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.006
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
Crystal structure of inhibitor saquinavir (SQV) in complex with multi-drug resistant HIV-1 protease (L63P/V82T/I84V) (referred to as ACT in paper)
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
4
N
N
One dimer (A & B identifiers) in one asymmetric unit
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
B
GLN
92
B
GLN
92
HELX_P
B
GLY
94
B
GLY
94
5
3
3
HYDROLASE/HYDROLASE INHIBITOR
protease inhibitor, drug resistance, entropy enthalpy compensation, AIDS, Hydrolase-hydrolase inhibitor complex, Protease
POL_HV1A2
UNP
1
491
P03369
PQITLWQRPLVTIRIGGQLKEALLDTGADDTVLEEMNLPGKWKPKMIGGIGGFIKVRQYDQIPVEICGHKAIGTVLVGPT
PVNIIGRNLLTQIGCTLNF
491
589
3EKQ
1
99
P03369
A
1
1
99
491
589
3EKQ
1
99
P03369
B
1
1
99
1
GLN
engineered mutation
LYS
7
3EKQ
A
P03369
UNP
497
7
1
LEU
engineered mutation
ILE
10
3EKQ
A
P03369
UNP
500
10
1
GLY
engineered mutation
VAL
48
3EKQ
A
P03369
UNP
538
48
1
ILE
engineered mutation
VAL
54
3EKQ
A
P03369
UNP
544
54
1
VAL
engineered mutation
ILE
64
3EKQ
A
P03369
UNP
554
64
1
VAL
engineered mutation
THR
82
3EKQ
A
P03369
UNP
572
82
2
GLN
engineered mutation
LYS
7
3EKQ
B
P03369
UNP
497
7
2
LEU
engineered mutation
ILE
10
3EKQ
B
P03369
UNP
500
10
2
GLY
engineered mutation
VAL
48
3EKQ
B
P03369
UNP
538
48
2
ILE
engineered mutation
VAL
54
3EKQ
B
P03369
UNP
544
54
2
VAL
engineered mutation
ILE
64
3EKQ
B
P03369
UNP
554
64
2
VAL
engineered mutation
THR
82
3EKQ
B
P03369
UNP
572
82
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
ILE
84
A
ILE
84
A
ILE
85
A
ILE
85
A
GLN
18
A
GLN
18
A
LEU
24
A
LEU
24
A
ILE
10
A
ILE
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
ILE
10
B
ILE
10
B
ILE
15
B
ILE
15
B
GLY
52
B
GLY
52
B
ILE
66
B
ILE
66
BINDING SITE FOR RESIDUE ROC A 100
A
ROC
100
Software
19
BINDING SITE FOR RESIDUE PO4 A 502
A
PO4
502
Software
2
BINDING SITE FOR RESIDUE PO4 B 501
B
PO4
501
Software
4
A
ASP
25
A
ASP
25
19
1_555
A
GLY
27
A
GLY
27
19
1_555
A
ALA
28
A
ALA
28
19
1_555
A
ASP
29
A
ASP
29
19
1_555
A
ASP
30
A
ASP
30
19
1_555
A
VAL
48
A
VAL
48
19
1_555
A
GLY
49
A
GLY
49
19
1_555
A
ILE
50
A
ILE
50
19
1_555
A
THR
80
A
THR
80
19
1_555
A
HOH
507
F
HOH
19
1_555
A
HOH
509
F
HOH
19
1_555
A
HOH
549
F
HOH
19
1_555
B
ARG
8
B
ARG
8
19
1_555
B
LEU
23
B
LEU
23
19
1_555
B
ASP
25
B
ASP
25
19
1_555
B
GLY
27
B
GLY
27
19
1_555
B
VAL
48
B
VAL
48
19
1_555
B
ILE
50
B
ILE
50
19
1_555
B
PRO
81
B
PRO
81
19
1_555
A
LYS
7
A
LYS
7
2
1_555
A
ARG
8
A
ARG
8
2
1_555
B
LYS
20
B
LYS
20
4
1_555
B
GLU
21
B
GLU
21
4
1_555
B
ASN
83
B
ASN
83
4
1_555
B
HOH
511
G
HOH
4
1_555
19
P 21 21 21