0.023294
0.000000
0.008709
0.000000
0.021877
0.000000
0.000000
0.000000
0.018806
0.00000
0.00000
0.00000
Wlodawer, A.
Gustchina, A.
Zdanov, A.
Kervinen, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
110.50
90.00
42.930
45.710
56.770
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
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
C32 H42 N2 O5 S
566.751
[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL
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
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
S
C
N
76
N
C
N
77
N
O
N
78
N
C
N
79
N
C
N
80
N
C
N
81
N
O
N
82
N
N
N
83
N
O
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
N
N
95
S
C
N
96
N
C
N
97
N
O
N
98
N
C
N
99
N
C
N
100
N
C
N
101
N
O
N
102
N
O
N
103
N
O
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
N
N
114
N
C
N
115
N
C
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
N
N
124
S
C
N
125
N
C
N
126
N
O
N
127
N
C
Y
128
N
C
Y
129
N
N
Y
130
N
C
Y
131
N
C
Y
132
N
N
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
H
N
144
N
O
N
145
N
H
N
146
N
H
N
147
N
S
N
148
N
O
N
149
N
O
Y
150
N
C
Y
151
N
C
Y
152
N
C
Y
153
N
C
Y
154
N
C
Y
155
N
C
Y
156
N
C
Y
157
N
C
Y
158
N
C
Y
159
N
C
N
160
N
O
N
161
N
C
N
162
N
N
N
163
S
C
N
164
N
C
Y
165
N
C
Y
166
N
C
Y
167
N
C
Y
168
N
C
Y
169
N
C
Y
170
N
C
N
171
N
N
N
172
S
C
N
173
N
C
N
174
N
O
N
175
N
C
N
176
N
C
N
177
N
C
N
178
N
C
N
179
N
O
N
180
S
C
N
181
N
C
N
182
N
C
N
183
N
C
N
184
N
C
N
185
N
C
N
186
N
C
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
H
N
200
N
H
N
201
N
H
N
202
N
H
N
203
N
H
N
204
N
H
N
205
N
H
N
206
N
H
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
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
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
N
N
230
S
C
N
231
N
C
N
232
N
O
N
233
S
C
N
234
N
C
N
235
N
C
N
236
N
C
N
237
N
O
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
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
N
N
252
S
C
N
253
N
C
N
254
N
O
N
255
N
C
N
256
N
C
N
257
N
C
N
258
N
C
N
259
N
O
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
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
N
N
274
S
C
N
275
N
C
N
276
N
O
N
277
N
C
N
278
N
C
N
279
N
C
N
280
N
C
N
281
N
N
N
282
N
O
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
H
N
293
N
H
N
294
N
H
N
295
N
H
N
296
N
H
N
297
N
H
N
298
N
N
N
299
S
C
N
300
N
C
N
301
N
O
N
302
N
C
N
303
N
C
N
304
N
S
N
305
N
C
N
306
N
O
N
307
N
H
N
308
N
H
N
309
N
H
N
310
N
H
N
311
N
H
N
312
N
H
N
313
N
H
N
314
N
H
N
315
N
H
N
316
N
H
N
317
N
H
N
318
N
N
N
319
S
C
N
320
N
C
N
321
N
O
N
322
N
C
Y
323
N
C
Y
324
N
C
Y
325
N
C
Y
326
N
C
Y
327
N
C
Y
328
N
C
N
329
N
O
N
330
N
H
N
331
N
H
N
332
N
H
N
333
N
H
N
334
N
H
N
335
N
H
N
336
N
H
N
337
N
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
N
N
342
S
C
N
343
N
C
N
344
N
O
N
345
N
C
N
346
N
C
N
347
N
C
N
348
N
O
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
N
N
359
S
C
N
360
N
C
N
361
N
O
N
362
N
C
N
363
N
O
N
364
N
O
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
R
C
N
377
N
O
N
378
N
C
N
379
N
O
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
N
N
390
S
C
N
391
N
C
N
392
N
O
N
393
N
C
Y
394
N
C
Y
395
N
C
Y
396
N
C
Y
397
N
C
Y
398
N
C
Y
399
N
C
N
400
N
O
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
H
N
412
N
H
N
413
N
N
N
414
S
C
N
415
N
C
N
416
N
O
N
417
N
C
N
418
N
C
N
419
N
C
N
420
N
O
N
421
N
H
N
422
N
H
N
423
N
H
N
424
N
H
N
425
N
H
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
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
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
sing
N
94
N
sing
N
95
N
doub
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
doub
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
doub
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
doub
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
doub
N
130
N
sing
Y
131
N
sing
N
132
N
sing
Y
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
doub
N
140
N
doub
N
141
N
sing
N
142
N
sing
Y
143
N
doub
Y
144
N
sing
N
145
N
sing
Y
146
N
sing
N
147
N
sing
Y
148
N
doub
N
149
N
sing
Y
150
N
sing
N
151
N
sing
Y
152
N
doub
Y
153
N
sing
Y
154
N
sing
Y
155
N
doub
N
156
N
sing
Y
157
N
sing
N
158
N
sing
Y
159
N
doub
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
Y
175
N
doub
Y
176
N
sing
Y
177
N
sing
N
178
N
sing
Y
179
N
doub
N
180
N
sing
Y
181
N
sing
N
182
N
sing
Y
183
N
doub
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
doub
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
sing
N
201
N
sing
N
202
N
doub
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
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
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
sing
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
sing
N
248
N
sing
N
249
N
sing
N
250
N
doub
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
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
doub
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
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
doub
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
doub
N
315
N
sing
N
316
N
sing
N
317
N
sing
N
318
N
sing
Y
319
N
doub
Y
320
N
sing
Y
321
N
sing
N
322
N
sing
Y
323
N
doub
N
324
N
sing
Y
325
N
doub
N
326
N
sing
Y
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
doub
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
sing
N
346
N
sing
N
347
N
sing
N
348
N
sing
N
349
N
sing
N
350
N
sing
N
351
N
sing
N
352
N
sing
N
353
N
sing
N
354
N
doub
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
doub
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
doub
N
384
N
sing
N
385
N
sing
N
386
N
sing
N
387
N
sing
Y
388
N
doub
Y
389
N
sing
Y
390
N
sing
N
391
N
sing
Y
392
N
doub
N
393
N
sing
Y
394
N
doub
N
395
N
sing
Y
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
doub
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
sing
N
418
N
sing
US
Protein Sci.
PRCIEI
0795
0961-8368
5
1453
1465
8844837
Structure of equine infectious anemia virus proteinase complexed with an inhibitor.
1996
10.2210/pdb1fmb/pdb
pdb_00001fmb
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
273
1
IMAGE PLATE
1995-04-04
MARRESEARCH
GRAPHITE(002)
M
x-ray
1
1.5418
1.0
1.5418
11392.265
EIAV PROTEASE
3.4.23.16
I54G
1
man
polymer
566.751
[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL
1
syn
non-polymer
18.015
water
128
nat
water
no
no
VTYNLEKRPTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRGRKYQGTGIGGVGGNVETFSTPVTIKKKGRHIKTRM
LVADIPVTILGRDILQDLGAKLVL
VTYNLEKRPTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRGRKYQGTGIGGVGGNVETFSTPVTIKKKGRHIKTRM
LVADIPVTILGRDILQDLGAKLVL
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Lentivirus
Escherichia
Escherichia coli
sample
11665
Equine infectious anemia virus
511693
Escherichia coli BL21
BL21
PET-226
1
2.29
46.27
4.6
pH 4.6
database_2
pdbx_database_status
pdbx_struct_special_symmetry
struct_ref_seq_dif
struct_site
chem_comp_atom
chem_comp_bond
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Database references
Derived calculations
Other
Data collection
Refinement description
1
0
1996-10-14
1
1
2008-03-24
1
2
2011-07-13
1
3
2021-11-03
1
4
2024-02-07
1
5
2024-04-03
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
Y
BNL
1996-02-27
REL
HYB
[2-(2-METHYL-PROPANE-2-SULFONYLMETHYL)-3-NAPHTHALEN-1-YL-PROPIONYL-VALINYL]-PHENYLALANINOL
HOH
water
homology-modeled structure derived from HIV-1 PR
Other
in silico model
HYB
201
2
HYB
HYB
201
A
HOH
301
3
HOH
HOH
301
A
HOH
302
3
HOH
HOH
302
A
HOH
303
3
HOH
HOH
303
A
HOH
304
3
HOH
HOH
304
A
HOH
305
3
HOH
HOH
305
A
HOH
306
3
HOH
HOH
306
A
HOH
307
3
HOH
HOH
307
A
HOH
308
3
HOH
HOH
308
A
HOH
309
3
HOH
HOH
309
A
HOH
310
3
HOH
HOH
310
A
HOH
311
3
HOH
HOH
311
A
HOH
312
3
HOH
HOH
312
A
HOH
313
3
HOH
HOH
313
A
HOH
314
3
HOH
HOH
314
A
HOH
315
3
HOH
HOH
315
A
HOH
316
3
HOH
HOH
316
A
HOH
317
3
HOH
HOH
317
A
HOH
318
3
HOH
HOH
318
A
HOH
319
3
HOH
HOH
319
A
HOH
320
3
HOH
HOH
320
A
HOH
321
3
HOH
HOH
321
A
HOH
322
3
HOH
HOH
322
A
HOH
323
3
HOH
HOH
323
A
HOH
324
3
HOH
HOH
324
A
HOH
325
3
HOH
HOH
325
A
HOH
326
3
HOH
HOH
326
A
HOH
327
3
HOH
HOH
327
A
HOH
328
3
HOH
HOH
328
A
HOH
329
3
HOH
HOH
329
A
HOH
330
3
HOH
HOH
330
A
HOH
331
3
HOH
HOH
331
A
HOH
332
3
HOH
HOH
332
A
HOH
333
3
HOH
HOH
333
A
HOH
334
3
HOH
HOH
334
A
HOH
335
3
HOH
HOH
335
A
HOH
336
3
HOH
HOH
336
A
HOH
337
3
HOH
HOH
337
A
HOH
338
3
HOH
HOH
338
A
HOH
339
3
HOH
HOH
339
A
HOH
340
3
HOH
HOH
340
A
HOH
341
3
HOH
HOH
341
A
HOH
342
3
HOH
HOH
342
A
HOH
343
3
HOH
HOH
343
A
HOH
344
3
HOH
HOH
344
A
HOH
345
3
HOH
HOH
345
A
HOH
346
3
HOH
HOH
346
A
HOH
347
3
HOH
HOH
347
A
HOH
348
3
HOH
HOH
348
A
HOH
349
3
HOH
HOH
349
A
HOH
350
3
HOH
HOH
350
A
HOH
351
3
HOH
HOH
351
A
HOH
352
3
HOH
HOH
352
A
HOH
353
3
HOH
HOH
353
A
HOH
354
3
HOH
HOH
354
A
HOH
355
3
HOH
HOH
355
A
HOH
356
3
HOH
HOH
356
A
HOH
357
3
HOH
HOH
357
A
HOH
358
3
HOH
HOH
358
A
HOH
359
3
HOH
HOH
359
A
HOH
360
3
HOH
HOH
360
A
HOH
361
3
HOH
HOH
361
A
HOH
362
3
HOH
HOH
362
A
HOH
363
3
HOH
HOH
363
A
HOH
364
3
HOH
HOH
364
A
HOH
365
3
HOH
HOH
365
A
HOH
366
3
HOH
HOH
366
A
HOH
367
3
HOH
HOH
367
A
HOH
368
3
HOH
HOH
368
A
HOH
369
3
HOH
HOH
369
A
HOH
370
3
HOH
HOH
370
A
HOH
371
3
HOH
HOH
371
A
HOH
372
3
HOH
HOH
372
A
HOH
373
3
HOH
HOH
373
A
HOH
374
3
HOH
HOH
374
A
HOH
375
3
HOH
HOH
375
A
HOH
376
3
HOH
HOH
376
A
HOH
377
3
HOH
HOH
377
A
HOH
378
3
HOH
HOH
378
A
HOH
379
3
HOH
HOH
379
A
HOH
380
3
HOH
HOH
380
A
HOH
381
3
HOH
HOH
381
A
HOH
382
3
HOH
HOH
382
A
HOH
383
3
HOH
HOH
383
A
HOH
384
3
HOH
HOH
384
A
HOH
385
3
HOH
HOH
385
A
HOH
386
3
HOH
HOH
386
A
HOH
387
3
HOH
HOH
387
A
HOH
388
3
HOH
HOH
388
A
HOH
389
3
HOH
HOH
389
A
HOH
390
3
HOH
HOH
390
A
HOH
391
3
HOH
HOH
391
A
HOH
392
3
HOH
HOH
392
A
HOH
393
3
HOH
HOH
393
A
HOH
394
3
HOH
HOH
394
A
HOH
395
3
HOH
HOH
395
A
HOH
396
3
HOH
HOH
396
A
HOH
397
3
HOH
HOH
397
A
HOH
398
3
HOH
HOH
398
A
HOH
399
3
HOH
HOH
399
A
HOH
400
3
HOH
HOH
400
A
HOH
401
3
HOH
HOH
401
A
HOH
402
3
HOH
HOH
402
A
HOH
403
3
HOH
HOH
403
A
HOH
404
3
HOH
HOH
404
A
HOH
405
3
HOH
HOH
405
A
HOH
406
3
HOH
HOH
406
A
HOH
407
3
HOH
HOH
407
A
HOH
408
3
HOH
HOH
408
A
HOH
409
3
HOH
HOH
409
A
HOH
410
3
HOH
HOH
410
A
HOH
411
3
HOH
HOH
411
A
HOH
412
3
HOH
HOH
412
A
HOH
413
3
HOH
HOH
413
A
HOH
414
3
HOH
HOH
414
A
HOH
415
3
HOH
HOH
415
A
HOH
416
3
HOH
HOH
416
A
HOH
417
3
HOH
HOH
417
A
HOH
418
3
HOH
HOH
418
A
HOH
419
3
HOH
HOH
419
A
HOH
420
3
HOH
HOH
420
A
HOH
421
3
HOH
HOH
421
A
HOH
422
3
HOH
HOH
422
A
HOH
423
3
HOH
HOH
423
A
HOH
424
3
HOH
HOH
424
A
HOH
425
3
HOH
HOH
425
A
HOH
426
3
HOH
HOH
426
A
HOH
427
3
HOH
HOH
427
A
HOH
428
3
HOH
HOH
428
A
VAL
1
n
1
VAL
1
A
THR
2
n
2
THR
2
A
TYR
3
n
3
TYR
3
A
ASN
4
n
4
ASN
4
A
LEU
5
n
5
LEU
5
A
GLU
6
n
6
GLU
6
A
LYS
7
n
7
LYS
7
A
ARG
8
n
8
ARG
8
A
PRO
9
n
9
PRO
9
A
THR
10
n
10
THR
10
A
THR
11
n
11
THR
11
A
ILE
12
n
12
ILE
12
A
VAL
13
n
13
VAL
13
A
LEU
14
n
14
LEU
14
A
ILE
15
n
15
ILE
15
A
ASN
16
n
16
ASN
16
A
ASP
17
n
17
ASP
17
A
THR
18
n
18
THR
18
A
PRO
19
n
19
PRO
19
A
LEU
20
n
20
LEU
20
A
ASN
21
n
21
ASN
21
A
VAL
22
n
22
VAL
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
THR
30
n
30
THR
30
A
SER
31
n
31
SER
31
A
VAL
32
n
32
VAL
32
A
LEU
33
n
33
LEU
33
A
THR
34
n
34
THR
34
A
THR
35
n
35
THR
35
A
ALA
36
n
36
ALA
36
A
HIS
37
n
37
HIS
37
A
TYR
38
n
38
TYR
38
A
ASN
39
n
39
ASN
39
A
ARG
40
n
40
ARG
40
A
LEU
41
n
41
LEU
41
A
LYS
42
n
42
LYS
42
A
TYR
43
n
43
TYR
43
A
ARG
44
n
44
ARG
44
A
GLY
45
n
45
GLY
45
A
ARG
46
n
46
ARG
46
A
LYS
47
n
47
LYS
47
A
TYR
48
n
48
TYR
48
A
GLN
49
n
49
GLN
49
A
GLY
50
n
50
GLY
50
A
THR
51
n
51
THR
51
A
GLY
52
n
52
GLY
52
A
ILE
53
n
53
ILE
53
A
GLY
54
n
54
GLY
54
A
GLY
55
n
55
GLY
55
A
VAL
56
n
56
VAL
56
A
GLY
57
n
57
GLY
57
A
GLY
58
n
58
GLY
58
A
ASN
59
n
59
ASN
59
A
VAL
60
n
60
VAL
60
A
GLU
61
n
61
GLU
61
A
THR
62
n
62
THR
62
A
PHE
63
n
63
PHE
63
A
SER
64
n
64
SER
64
A
THR
65
n
65
THR
65
A
PRO
66
n
66
PRO
66
A
VAL
67
n
67
VAL
67
A
THR
68
n
68
THR
68
A
ILE
69
n
69
ILE
69
A
LYS
70
n
70
LYS
70
A
LYS
71
n
71
LYS
71
A
LYS
72
n
72
LYS
72
A
GLY
73
n
73
GLY
73
A
ARG
74
n
74
ARG
74
A
HIS
75
n
75
HIS
75
A
ILE
76
n
76
ILE
76
A
LYS
77
n
77
LYS
77
A
THR
78
n
78
THR
78
A
ARG
79
n
79
ARG
79
A
MET
80
n
80
MET
80
A
LEU
81
n
81
LEU
81
A
VAL
82
n
82
VAL
82
A
ALA
83
n
83
ALA
83
A
ASP
84
n
84
ASP
84
A
ILE
85
n
85
ILE
85
A
PRO
86
n
86
PRO
86
A
VAL
87
n
87
VAL
87
A
THR
88
n
88
THR
88
A
ILE
89
n
89
ILE
89
A
LEU
90
n
90
LEU
90
A
GLY
91
n
91
GLY
91
A
ARG
92
n
92
ARG
92
A
ASP
93
n
93
ASP
93
A
ILE
94
n
94
ILE
94
A
LEU
95
n
95
LEU
95
A
GLN
96
n
96
GLN
96
A
ASP
97
n
97
ASP
97
A
LEU
98
n
98
LEU
98
A
GLY
99
n
99
GLY
99
A
ALA
100
n
100
ALA
100
A
LYS
101
n
101
LYS
101
A
LEU
102
n
102
LEU
102
A
VAL
103
n
103
VAL
103
A
LEU
104
n
104
LEU
104
A
author_and_software_defined_assembly
PISA,PQS
2
dimeric
5820
-36
9580
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
2_555
-x,y,-z
crystal symmetry operation
0.0000000000
0.0000000000
0.0000000000
A
O
THR
11
A
O
THR
11
A
N
VAL
22
A
N
VAL
22
A
O
LEU
33
A
O
LEU
33
A
N
LEU
81
A
N
LEU
81
A
O
ARG
74
A
O
ARG
74
A
N
LYS
71
A
N
LYS
71
A
O
SER
64
A
O
SER
64
A
N
TYR
48
A
N
TYR
48
A
O
ILE
53
A
O
ILE
53
A
N
VAL
60
A
N
VAL
60
1
A
HYB
201
B
HYB
1
A
HOH
301
C
HOH
1
A
CG
ARG
46
A
CG
ARG
46
1
Y
1
A
CD
ARG
46
A
CD
ARG
46
1
Y
1
A
NE
ARG
46
A
NE
ARG
46
1
Y
1
A
CZ
ARG
46
A
CZ
ARG
46
1
Y
1
A
NH1
ARG
46
A
NH1
ARG
46
1
Y
1
A
NH2
ARG
46
A
NH2
ARG
46
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
A
A
N
O
VAL
HOH
1
371
1.95
1
A
A
O
O
HOH
HOH
380
418
2.11
1
A
A
CB
O
ASN
HOH
21
381
2.14
1
A
A
OE1
O
GLN
HOH
96
388
2.15
1
A
A
O
O
HOH
HOH
314
336
2.16
1
8.42
1.20
123.30
131.72
A
A
A
OE1
CD
OE2
GLU
GLU
GLU
6
6
6
N
1
-3.88
0.50
120.30
116.42
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
8
8
8
N
1
-12.93
2.00
110.40
97.47
A
A
A
CB
CA
C
ASP
ASP
ASP
17
17
17
N
1
-4.55
0.60
121.00
116.45
A
A
A
CB
CG
CD1
TYR
TYR
TYR
43
43
43
N
1
-4.42
0.50
120.30
115.88
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
44
44
44
N
1
-13.08
1.80
110.60
97.52
A
A
A
N
CA
CB
LYS
LYS
LYS
47
47
47
N
1
20.27
2.20
113.40
133.67
A
A
A
CA
CB
CG
LYS
LYS
LYS
47
47
47
N
1
-3.74
0.60
121.00
117.26
A
A
A
CB
CG
CD1
TYR
TYR
TYR
48
48
48
N
1
13.30
2.10
122.30
135.60
A
A
A
C
N
CA
THR
GLY
GLY
51
52
52
Y
1
-3.22
0.50
120.30
117.08
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
74
74
74
N
1
3.42
0.50
120.30
123.72
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
79
79
79
N
1
3.01
0.50
120.30
123.31
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
92
92
92
N
1
5.51
0.90
118.30
123.81
A
A
A
CB
CG
OD1
ASP
ASP
ASP
93
93
93
N
1
A
A
O
O
HOH
HOH
312
326
2.03
1_555
3_555
19.12
THE TWO ORIENTATIONS OF THE INHIBITOR CREATED IN THE ACTIVE
ENZYME OVERLAP WITH COMPLETE SUPERPOSITION AT THE PERIPHERY
AND SOME DEVIATION IN THE CENTER. RESIDUES 56 - 57 HAVE BEEN
MODELED WITH TWO ORIENTATIONS OF THEIR MAIN CHAINS, SINCE THEY
FORM ALTERNATE HYDROGEN BONDS, DUE TO THE SAME DISORDER
PHENOMENON.
0.1360000
1.8
20.0
8140
85.
1
3.0
MOLECULAR REPLACEMENT
HIV-1 PROTEASE
1.8
20.0
128
959
40
0
791
0.014
0.017
0.046
0.044
0.043
0.059
1.916
2.500
2.567
3.500
3.720
4.000
5.328
7.000
0.018
0.022
0.177
0.180
0.207
0.500
0.450
0.500
0.382
0.500
3.4
3.5
19.1
14.0
32.4
12.0
1.80
20.0
1FMB
8443
1.0
0.0670000
1
6.1
88.5
model building
X-PLOR
refinement
X-PLOR
data reduction
DENZO
data scaling
SCALEPACK
phasing
X-PLOR
EIAV PROTEASE COMPLEXED WITH THE INHIBITOR HBY-793
1
N
N
2
N
N
3
N
N
THIS FILE CONTAINS ONLY A MONOMER, WHILE THE ACTIVE ENZYME
IS A DIMER. IN ORDER TO CREATE A DIMERIC MOLECULE,
CRYSTALLOGRAPHIC COORDINATES NEED TO BE TRANSFORMED TO
(-X), Y, (-Z).
A
THR
35
A
THR
35
HELX_P
A
ARG
40
A
ARG
40
1
1
6
A
ARG
92
A
ARG
92
HELX_P
A
ASP
97
A
ASP
97
1
2
6
HYDROLASE (ACID PROTEINASE)
HYDROLASE (ACID PROTEINASE), RNA-DIRECTED DNA POLYMERASE, ASPARTYL PROTEASE, ENDONUCLEASE, POLYPROTEIN
POL_EIAVC
UNP
1
1
P32542
TAWTFLKAMQKCSKKREARGSREAPETNFPDTTEESAQQICCTRDSSDSKSVPRSERNKKGIQCQGEGSSRGSQPGQFVG
VTYNLEKRPTTIVLINDTPLNVLLDTGADTSVLTTAHYNRLKYRGRKYQGTGIIGVGGNVETFSTPVTIKKKGRHIKTRM
LVADIPVTILGRDILQDLGAKLVLAQLSKEIKFRKIELKEGTMGPKIPQWPLTKEKLEGAKETVQRLLSEGKISEASDNN
PYNSPIFVIKKRSGKWRLLQDLRELNKTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTAFTIPSI
NHQEPDKRYVWKCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFVGSNGSKKQHKELIIELRAILQKGFET
PDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMVKNPTLNDVQKLMGNITWMSSGVPGLTVKHIAATTKGCLELNQKVIWT
EEAQKELEENNEKIKNAQGLQYYNPEEEMLCEVEITKNYEATYVIKQSQGILWAGKKIMKANKGWSTVKNLMLLLQHVAT
ESITRVGKCPTFKVPFTKEQVMWEMQKGWYYSWLPEIVYTHQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGIAAYVTS
NGRTKQKRLGPVTHQVAERMAIQMALEDTRDKQVNIVTDSYYCWKNITEGLGLEGPQNPWWPIIQNIREKEIVYFAWVPG
HKGIYGNQLADEAAKIKEEIMLAYQGTQIKEKRDEDAGFDLCVPYDIMIPVSDTKIIPTDVKIQVPPNSFGWVTGKSSMA
KQGLLINGGIIDEGYTGEIQVICTNIGKSNIKLIEGQKFAQLIILQHHSNSRQPWDENKISQRGDKGFGSTGVFWVENIQ
EAQDEHENWHTSPKILARNYKIPLTVAKQITQECPHCTKQGSGPAGCVMRSPNHWQADCTHLDNKIILHFVESNSGYIHA
TLLSKENALCTSLAILEWARLFSPKSLHTDNGTNFVAEPVVNLLKFLKIAHTTGIPYHPESQGIVERANRTLKEKIQSHR
DNTQTLEAALQLALITCNKGRESMGGQTPWEVFITNQAQVIHEKLLLQQAQSSKKFCFYKIPGEHDWKGPTRVLWKGDGA
VVVNDEGKGIIAVPLTRTKLLIKPN
81
184
1FMB
1
104
P32542
A
1
1
104
1
ILE
engineered mutation
GLY
54
1FMB
A
P32542
UNP
134
54
2
4
2
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
A
THR
10
A
THR
10
A
ILE
15
A
ILE
15
A
THR
18
A
THR
18
A
LEU
23
A
LEU
23
A
VAL
32
A
VAL
32
A
THR
34
A
THR
34
A
ARG
74
A
ARG
74
A
ALA
83
A
ALA
83
A
PHE
63
A
PHE
63
A
LYS
71
A
LYS
71
A
LYS
47
A
LYS
47
A
GLN
49
A
GLN
49
A
ILE
53
A
ILE
53
A
GLY
55
A
GLY
55
A
GLY
58
A
GLY
58
A
VAL
60
A
VAL
60
BINDING SITE FOR RESIDUE HYB A 201
A
HYB
201
Software
32
A
VAL
1
A
VAL
1
32
3_555
A
VAL
1
A
VAL
1
32
4_455
A
THR
2
A
THR
2
32
3_555
A
THR
2
A
THR
2
32
4_455
A
ARG
8
A
ARG
8
32
2_555
A
ARG
8
A
ARG
8
32
1_555
A
ASP
25
A
ASP
25
32
2_555
A
ASP
25
A
ASP
25
32
1_555
A
GLY
27
A
GLY
27
32
1_555
A
GLY
27
A
GLY
27
32
2_555
A
ALA
28
A
ALA
28
32
1_555
A
ALA
28
A
ALA
28
32
2_555
A
ASP
29
A
ASP
29
32
2_555
A
ASP
29
A
ASP
29
32
1_555
A
GLY
52
A
GLY
52
32
1_555
A
GLY
52
A
GLY
52
32
2_555
A
ILE
53
A
ILE
53
32
2_555
A
ILE
53
A
ILE
53
32
1_555
A
GLY
54
A
GLY
54
32
2_555
A
GLY
54
A
GLY
54
32
1_555
A
GLY
55
A
GLY
55
32
2_555
A
GLY
55
A
GLY
55
32
1_555
A
VAL
56
A
VAL
56
32
2_555
A
VAL
56
A
VAL
56
32
1_555
A
PRO
86
A
PRO
86
32
1_555
A
PRO
86
A
PRO
86
32
2_555
A
ILE
89
A
ILE
89
32
2_555
A
ILE
89
A
ILE
89
32
1_555
A
HOH
301
C
HOH
32
2_555
A
HOH
301
C
HOH
32
1_555
A
HOH
325
C
HOH
32
2_555
A
HOH
325
C
HOH
32
1_555
5
C 1 2 1