0.009237
0.000000
0.002380
0.000000
0.012160
0.000000
0.000000
0.000000
0.019307
0.00000
0.00000
0.00000
Yin, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
104.45
90.00
108.264
82.235
53.487
C2 H4 O
44.053
ACETYL GROUP
non-polymer
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
C3 H8 O3
92.094
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
non-polymer
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
C8 H14 N2 O2
170.209
(3S)-3-[(2S)-2-AMINO-3-OXOBUTYL]PYRROLIDIN-2-ONE
non-polymer
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
C11 H15 N O3
209.242
n
O-benzyl-L-threonine
L-peptide linking
N
1
N
C
N
2
N
O
N
3
N
C
N
4
N
H
N
5
N
H
N
6
N
H
N
7
N
H
N
8
N
N
N
9
S
C
N
10
N
C
N
11
N
O
N
12
N
C
N
13
N
O
N
14
N
H
N
15
N
H
N
16
N
H
N
17
N
H
N
18
N
H
N
19
N
H
N
20
N
H
N
21
N
N
N
22
S
C
N
23
N
C
N
24
N
O
N
25
N
C
N
26
N
C
N
27
N
C
N
28
N
N
N
29
N
C
N
30
N
N
N
31
N
N
N
32
N
O
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
H
N
42
N
H
N
43
N
H
N
44
N
H
N
45
N
H
N
46
N
H
N
47
N
H
N
48
N
N
N
49
S
C
N
50
N
C
N
51
N
O
N
52
N
C
N
53
N
C
N
54
N
O
N
55
N
N
N
56
N
O
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
N
N
66
S
C
N
67
N
C
N
68
N
O
N
69
N
C
N
70
N
C
N
71
N
O
N
72
N
O
N
73
N
O
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
N
N
82
R
C
N
83
N
C
N
84
N
O
N
85
N
C
N
86
N
S
N
87
N
O
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
N
N
96
S
C
N
97
N
C
N
98
N
O
N
99
N
C
N
100
N
C
N
101
N
C
N
102
N
O
N
103
N
N
N
104
N
O
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
N
N
116
S
C
N
117
N
C
N
118
N
O
N
119
N
C
N
120
N
C
N
121
N
C
N
122
N
O
N
123
N
O
N
124
N
O
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
N
N
135
N
C
N
136
N
C
N
137
N
O
N
138
N
O
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
C
N
145
N
O
N
146
N
C
N
147
N
O
N
148
N
C
N
149
N
O
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
N
N
159
S
C
N
160
N
C
N
161
N
O
N
162
N
C
Y
163
N
C
Y
164
N
N
Y
165
N
C
Y
166
N
C
Y
167
N
N
N
168
N
O
N
169
N
H
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
O
N
180
N
H
N
181
N
H
N
182
N
N
N
183
S
C
N
184
N
C
N
185
N
O
N
186
S
C
N
187
N
C
N
188
N
C
N
189
N
C
N
190
N
O
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
O
N
205
N
C
N
206
N
N
N
207
N
C
N
208
N
C
N
209
S
C
N
210
N
C
N
211
S
C
N
212
N
N
N
213
N
C
N
214
N
O
N
215
N
C
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
C
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
H
N
251
N
H
N
252
N
N
N
253
S
C
N
254
N
C
N
255
N
O
N
256
N
C
N
257
N
C
N
258
N
C
N
259
N
C
N
260
N
N
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
H
N
274
N
H
N
275
N
H
N
276
N
H
N
277
N
N
N
278
S
C
N
279
N
C
N
280
N
O
N
281
N
C
N
282
N
C
N
283
N
S
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
H
N
296
N
H
N
297
N
N
N
298
S
C
N
299
N
C
N
300
N
O
N
301
N
C
Y
302
N
C
Y
303
N
C
Y
304
N
C
Y
305
N
C
Y
306
N
C
Y
307
N
C
N
308
N
O
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
H
N
319
N
H
N
320
N
N
N
321
S
C
N
322
N
C
N
323
N
O
N
324
N
C
N
325
N
C
N
326
N
C
N
327
N
O
N
328
N
H
N
329
N
H
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
N
N
338
S
C
N
339
N
C
N
340
N
O
N
341
N
C
N
342
N
O
N
343
N
O
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
N
N
352
S
C
N
353
N
C
N
354
N
O
N
355
R
C
N
356
N
O
N
357
N
C
N
358
N
O
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
N
N
369
S
C
N
370
N
C
N
371
N
O
N
372
N
C
Y
373
N
C
Y
374
N
C
Y
375
N
C
Y
376
N
N
Y
377
N
C
Y
378
N
C
Y
379
N
C
Y
380
N
C
Y
381
N
C
N
382
N
O
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
H
N
395
N
N
N
396
S
C
N
397
N
C
N
398
N
O
N
399
N
C
Y
400
N
C
Y
401
N
C
Y
402
N
C
Y
403
N
C
Y
404
N
C
Y
405
N
C
N
406
N
O
N
407
N
O
N
408
N
H
N
409
N
H
N
410
N
H
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
N
N
420
S
C
N
421
N
C
N
422
N
O
N
423
N
C
N
424
N
C
N
425
N
C
N
426
N
O
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
C
N
439
N
N
N
440
N
O
Y
441
N
C
Y
442
N
C
Y
443
N
C
Y
444
N
C
Y
445
N
C
Y
446
N
C
N
447
N
C
N
448
S
C
N
449
R
C
N
450
N
O
N
451
N
C
N
452
N
O
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
H
N
463
N
H
N
464
N
H
N
465
N
H
N
466
N
H
N
467
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
sing
N
12
N
sing
N
13
N
doub
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
sing
N
25
N
doub
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
doub
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
doub
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
doub
N
57
N
sing
N
58
N
sing
N
59
N
sing
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
doub
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
doub
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
doub
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
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
sing
N
114
N
doub
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
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
doub
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
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
Y
159
N
sing
Y
160
N
doub
Y
161
N
doub
N
162
N
sing
Y
163
N
sing
N
164
N
sing
Y
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
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
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
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
doub
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
sing
N
244
N
sing
N
245
N
doub
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
N
257
N
sing
N
258
N
sing
N
259
N
sing
N
260
N
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
doub
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
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
doub
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
Y
293
N
doub
Y
294
N
sing
Y
295
N
sing
N
296
N
sing
Y
297
N
doub
N
298
N
sing
Y
299
N
doub
N
300
N
sing
Y
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
doub
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
N
324
N
sing
N
325
N
sing
N
326
N
sing
N
327
N
sing
N
328
N
doub
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
doub
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
sing
N
355
N
sing
N
356
N
sing
N
357
N
doub
N
358
N
sing
N
359
N
sing
N
360
N
sing
N
361
N
sing
Y
362
N
doub
Y
363
N
sing
Y
364
N
sing
N
365
N
sing
Y
366
N
doub
Y
367
N
sing
Y
368
N
sing
N
369
N
sing
Y
370
N
sing
Y
371
N
doub
N
372
N
sing
Y
373
N
doub
N
374
N
sing
Y
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
doub
N
386
N
sing
N
387
N
sing
N
388
N
sing
N
389
N
sing
Y
390
N
doub
Y
391
N
sing
Y
392
N
sing
N
393
N
sing
Y
394
N
doub
N
395
N
sing
Y
396
N
doub
N
397
N
sing
Y
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
doub
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
N
419
N
sing
N
420
N
sing
N
421
N
doub
N
422
N
sing
N
423
N
sing
N
424
N
sing
N
425
N
sing
N
426
N
sing
Y
427
N
doub
Y
428
N
sing
N
429
N
sing
Y
430
N
sing
N
431
N
sing
Y
432
N
doub
N
433
N
sing
Y
434
N
sing
N
435
N
sing
Y
436
N
doub
N
437
N
sing
N
438
N
sing
N
439
N
sing
N
440
N
sing
N
441
N
sing
N
442
N
sing
N
443
N
sing
N
444
N
sing
N
445
N
sing
N
446
N
sing
N
447
N
sing
N
448
N
sing
N
449
N
sing
N
450
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
371
1060
1074
10.1016/j.jmb.2007.06.001
17599357
A mechanistic view of enzyme inhibition and peptide hydrolysis in the active site of the SARS-CoV 3C-like peptidase
2007
10.2210/pdb2z3e/pdb
pdb_00002z3e
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
crystal
CCD
2006-05-05
ADSC QUANTUM 315
double crystal
SINGLE WAVELENGTH
M
x-ray
1
0.97946
1.0
12.3.1
ALS
0.97946
SYNCHROTRON
ALS BEAMLINE 12.3.1
33876.637
Replicase polyprotein 1ab (pp1ab)
3.4.22.-
UNP residues 3241-3546, SARS-CoV 3C-like peptidase
1
man
polymer
599.762
ACE VAL Z3E LEU KCQ peptide
1
syn
polymer
92.094
GLYCEROL
2
syn
non-polymer
18.015
water
207
nat
water
SARS-CoV 3C-like peptidase
no
no
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
A
polypeptide(L)
no
yes
(ACE)V(Z3E)L(KCQ)
XVXLX
I
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
Coronavirus
Escherichia
sample
rep
227859
SARS coronavirus
562
Escherichia coli
GJ1158
plasmid
PT7HSP2
1
3.37
63.50
VAPOR DIFFUSION, HANGING DROP
6.5
50mM ammonium acetate, 5% polyethylene glycol (Mr10, 000), 3% ethylene glycol, 3% dimethyl sulfoxide, 1mM dithiothreitol, 0.1mM Mes (pH6.5), VAPOR DIFFUSION, HANGING DROP, temperature 297K
297
software
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
struct_site
chem_comp_atom
chem_comp_bond
struct_conn
repository
Initial release
Version format compliance
Atomic model
Database references
Derived calculations
Non-polymer description
Structure summary
Version format compliance
Other
Refinement description
Data collection
Database references
Derived calculations
Refinement description
Data collection
Derived calculations
1
0
2007-07-03
1
1
2008-04-23
1
2
2011-07-13
1
3
2013-02-27
1
4
2017-10-11
1
5
2023-11-01
1
6
2023-11-15
_software.name
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_chem_comp_atom.atom_id
_chem_comp_bond.atom_id_2
_struct_conn.pdbx_leaving_atom_flag
PDBJ
Y
PDBJ
2007-06-04
REL
REL
GOL
GLYCEROL
HOH
water
The peptide was chemically synthesized.
sample
THE PEPTIDE INHIBITOR REPRESENTS THE THIACYL-LIKE FORM OF THE INHIBITOR. THE ORIGINAL INHIBITOR HAD A LARGE LEAVING GROUP (PHTALHYDRAZIDE) THAT IS REMOVED DURING THE REACTION SO IS NOT INCLUDED IN THE LIGAND.
2A5A
PDB
experimental model
Inhibitor
N-acetyl-L-valyl-O-benzyl-L-threonyl-N-[(1R,2R)-2-hydroxy-1-{[(3R)-2-oxopyrrolidin-3-yl]methyl}propyl]-L-leucinamide
Peptide-like
GOL
801
3
GOL
GOL
801
A
GOL
802
3
GOL
GOL
802
A
HOH
803
4
HOH
HOH
803
A
HOH
804
4
HOH
HOH
804
A
HOH
805
4
HOH
HOH
805
A
HOH
806
4
HOH
HOH
806
A
HOH
807
4
HOH
HOH
807
A
HOH
808
4
HOH
HOH
808
A
HOH
809
4
HOH
HOH
809
A
HOH
810
4
HOH
HOH
810
A
HOH
811
4
HOH
HOH
811
A
HOH
812
4
HOH
HOH
812
A
HOH
813
4
HOH
HOH
813
A
HOH
814
4
HOH
HOH
814
A
HOH
815
4
HOH
HOH
815
A
HOH
816
4
HOH
HOH
816
A
HOH
817
4
HOH
HOH
817
A
HOH
818
4
HOH
HOH
818
A
HOH
819
4
HOH
HOH
819
A
HOH
820
4
HOH
HOH
820
A
HOH
821
4
HOH
HOH
821
A
HOH
822
4
HOH
HOH
822
A
HOH
823
4
HOH
HOH
823
A
HOH
824
4
HOH
HOH
824
A
HOH
825
4
HOH
HOH
825
A
HOH
826
4
HOH
HOH
826
A
HOH
827
4
HOH
HOH
827
A
HOH
828
4
HOH
HOH
828
A
HOH
829
4
HOH
HOH
829
A
HOH
830
4
HOH
HOH
830
A
HOH
831
4
HOH
HOH
831
A
HOH
832
4
HOH
HOH
832
A
HOH
833
4
HOH
HOH
833
A
HOH
834
4
HOH
HOH
834
A
HOH
835
4
HOH
HOH
835
A
HOH
836
4
HOH
HOH
836
A
HOH
837
4
HOH
HOH
837
A
HOH
838
4
HOH
HOH
838
A
HOH
839
4
HOH
HOH
839
A
HOH
840
4
HOH
HOH
840
A
HOH
841
4
HOH
HOH
841
A
HOH
842
4
HOH
HOH
842
A
HOH
843
4
HOH
HOH
843
A
HOH
844
4
HOH
HOH
844
A
HOH
845
4
HOH
HOH
845
A
HOH
846
4
HOH
HOH
846
A
HOH
847
4
HOH
HOH
847
A
HOH
848
4
HOH
HOH
848
A
HOH
849
4
HOH
HOH
849
A
HOH
850
4
HOH
HOH
850
A
HOH
851
4
HOH
HOH
851
A
HOH
852
4
HOH
HOH
852
A
HOH
853
4
HOH
HOH
853
A
HOH
854
4
HOH
HOH
854
A
HOH
855
4
HOH
HOH
855
A
HOH
856
4
HOH
HOH
856
A
HOH
857
4
HOH
HOH
857
A
HOH
858
4
HOH
HOH
858
A
HOH
859
4
HOH
HOH
859
A
HOH
860
4
HOH
HOH
860
A
HOH
861
4
HOH
HOH
861
A
HOH
862
4
HOH
HOH
862
A
HOH
863
4
HOH
HOH
863
A
HOH
864
4
HOH
HOH
864
A
HOH
865
4
HOH
HOH
865
A
HOH
866
4
HOH
HOH
866
A
HOH
867
4
HOH
HOH
867
A
HOH
868
4
HOH
HOH
868
A
HOH
869
4
HOH
HOH
869
A
HOH
870
4
HOH
HOH
870
A
HOH
871
4
HOH
HOH
871
A
HOH
872
4
HOH
HOH
872
A
HOH
873
4
HOH
HOH
873
A
HOH
874
4
HOH
HOH
874
A
HOH
875
4
HOH
HOH
875
A
HOH
876
4
HOH
HOH
876
A
HOH
877
4
HOH
HOH
877
A
HOH
878
4
HOH
HOH
878
A
HOH
879
4
HOH
HOH
879
A
HOH
880
4
HOH
HOH
880
A
HOH
881
4
HOH
HOH
881
A
HOH
882
4
HOH
HOH
882
A
HOH
883
4
HOH
HOH
883
A
HOH
884
4
HOH
HOH
884
A
HOH
885
4
HOH
HOH
885
A
HOH
886
4
HOH
HOH
886
A
HOH
887
4
HOH
HOH
887
A
HOH
888
4
HOH
HOH
888
A
HOH
889
4
HOH
HOH
889
A
HOH
890
4
HOH
HOH
890
A
HOH
891
4
HOH
HOH
891
A
HOH
892
4
HOH
HOH
892
A
HOH
893
4
HOH
HOH
893
A
HOH
894
4
HOH
HOH
894
A
HOH
895
4
HOH
HOH
895
A
HOH
896
4
HOH
HOH
896
A
HOH
897
4
HOH
HOH
897
A
HOH
898
4
HOH
HOH
898
A
HOH
899
4
HOH
HOH
899
A
HOH
900
4
HOH
HOH
900
A
HOH
901
4
HOH
HOH
901
A
HOH
902
4
HOH
HOH
902
A
HOH
903
4
HOH
HOH
903
A
HOH
904
4
HOH
HOH
904
A
HOH
905
4
HOH
HOH
905
A
HOH
906
4
HOH
HOH
906
A
HOH
907
4
HOH
HOH
907
A
HOH
908
4
HOH
HOH
908
A
HOH
909
4
HOH
HOH
909
A
HOH
910
4
HOH
HOH
910
A
HOH
911
4
HOH
HOH
911
A
HOH
912
4
HOH
HOH
912
A
HOH
913
4
HOH
HOH
913
A
HOH
914
4
HOH
HOH
914
A
HOH
915
4
HOH
HOH
915
A
HOH
916
4
HOH
HOH
916
A
HOH
917
4
HOH
HOH
917
A
HOH
918
4
HOH
HOH
918
A
HOH
919
4
HOH
HOH
919
A
HOH
920
4
HOH
HOH
920
A
HOH
921
4
HOH
HOH
921
A
HOH
922
4
HOH
HOH
922
A
HOH
923
4
HOH
HOH
923
A
HOH
924
4
HOH
HOH
924
A
HOH
925
4
HOH
HOH
925
A
HOH
926
4
HOH
HOH
926
A
HOH
927
4
HOH
HOH
927
A
HOH
928
4
HOH
HOH
928
A
HOH
929
4
HOH
HOH
929
A
HOH
930
4
HOH
HOH
930
A
HOH
931
4
HOH
HOH
931
A
HOH
932
4
HOH
HOH
932
A
HOH
933
4
HOH
HOH
933
A
HOH
934
4
HOH
HOH
934
A
HOH
935
4
HOH
HOH
935
A
HOH
936
4
HOH
HOH
936
A
HOH
937
4
HOH
HOH
937
A
HOH
938
4
HOH
HOH
938
A
HOH
939
4
HOH
HOH
939
A
HOH
940
4
HOH
HOH
940
A
HOH
941
4
HOH
HOH
941
A
HOH
942
4
HOH
HOH
942
A
HOH
943
4
HOH
HOH
943
A
HOH
944
4
HOH
HOH
944
A
HOH
945
4
HOH
HOH
945
A
HOH
946
4
HOH
HOH
946
A
HOH
947
4
HOH
HOH
947
A
HOH
948
4
HOH
HOH
948
A
HOH
949
4
HOH
HOH
949
A
HOH
950
4
HOH
HOH
950
A
HOH
951
4
HOH
HOH
951
A
HOH
952
4
HOH
HOH
952
A
HOH
953
4
HOH
HOH
953
A
HOH
954
4
HOH
HOH
954
A
HOH
955
4
HOH
HOH
955
A
HOH
956
4
HOH
HOH
956
A
HOH
957
4
HOH
HOH
957
A
HOH
958
4
HOH
HOH
958
A
HOH
959
4
HOH
HOH
959
A
HOH
960
4
HOH
HOH
960
A
HOH
961
4
HOH
HOH
961
A
HOH
962
4
HOH
HOH
962
A
HOH
963
4
HOH
HOH
963
A
HOH
964
4
HOH
HOH
964
A
HOH
965
4
HOH
HOH
965
A
HOH
966
4
HOH
HOH
966
A
HOH
967
4
HOH
HOH
967
A
HOH
968
4
HOH
HOH
968
A
HOH
969
4
HOH
HOH
969
A
HOH
970
4
HOH
HOH
970
A
HOH
971
4
HOH
HOH
971
A
HOH
972
4
HOH
HOH
972
A
HOH
973
4
HOH
HOH
973
A
HOH
974
4
HOH
HOH
974
A
HOH
975
4
HOH
HOH
975
A
HOH
976
4
HOH
HOH
976
A
HOH
977
4
HOH
HOH
977
A
HOH
978
4
HOH
HOH
978
A
HOH
979
4
HOH
HOH
979
A
HOH
980
4
HOH
HOH
980
A
HOH
981
4
HOH
HOH
981
A
HOH
982
4
HOH
HOH
982
A
HOH
983
4
HOH
HOH
983
A
HOH
984
4
HOH
HOH
984
A
HOH
985
4
HOH
HOH
985
A
HOH
986
4
HOH
HOH
986
A
HOH
987
4
HOH
HOH
987
A
HOH
988
4
HOH
HOH
988
A
HOH
989
4
HOH
HOH
989
A
HOH
990
4
HOH
HOH
990
A
HOH
991
4
HOH
HOH
991
A
HOH
992
4
HOH
HOH
992
A
HOH
993
4
HOH
HOH
993
A
HOH
994
4
HOH
HOH
994
A
HOH
995
4
HOH
HOH
995
A
HOH
996
4
HOH
HOH
996
A
HOH
997
4
HOH
HOH
997
A
HOH
998
4
HOH
HOH
998
A
HOH
999
4
HOH
HOH
999
A
HOH
1000
4
HOH
HOH
1000
A
HOH
1001
4
HOH
HOH
1001
A
HOH
1002
4
HOH
HOH
1002
A
HOH
1003
4
HOH
HOH
1003
A
HOH
1004
4
HOH
HOH
1004
A
HOH
1005
4
HOH
HOH
1005
A
HOH
1006
4
HOH
HOH
1006
A
HOH
1007
4
HOH
HOH
1007
A
HOH
922
4
HOH
HOH
922
I
HOH
1008
4
HOH
HOH
1008
I
SER
1
n
1
SER
1
A
GLY
2
n
2
GLY
2
A
PHE
3
n
3
PHE
3
A
ARG
4
n
4
ARG
4
A
LYS
5
n
5
LYS
5
A
MET
6
n
6
MET
6
A
ALA
7
n
7
ALA
7
A
PHE
8
n
8
PHE
8
A
PRO
9
n
9
PRO
9
A
SER
10
n
10
SER
10
A
GLY
11
n
11
GLY
11
A
LYS
12
n
12
LYS
12
A
VAL
13
n
13
VAL
13
A
GLU
14
n
14
GLU
14
A
GLY
15
n
15
GLY
15
A
CYS
16
n
16
CYS
16
A
MET
17
n
17
MET
17
A
VAL
18
n
18
VAL
18
A
GLN
19
n
19
GLN
19
A
VAL
20
n
20
VAL
20
A
THR
21
n
21
THR
21
A
CYS
22
n
22
CYS
22
A
GLY
23
n
23
GLY
23
A
THR
24
n
24
THR
24
A
THR
25
n
25
THR
25
A
THR
26
n
26
THR
26
A
LEU
27
n
27
LEU
27
A
ASN
28
n
28
ASN
28
A
GLY
29
n
29
GLY
29
A
LEU
30
n
30
LEU
30
A
TRP
31
n
31
TRP
31
A
LEU
32
n
32
LEU
32
A
ASP
33
n
33
ASP
33
A
ASP
34
n
34
ASP
34
A
THR
35
n
35
THR
35
A
VAL
36
n
36
VAL
36
A
TYR
37
n
37
TYR
37
A
CYS
38
n
38
CYS
38
A
PRO
39
n
39
PRO
39
A
ARG
40
n
40
ARG
40
A
HIS
41
n
41
HIS
41
A
VAL
42
n
42
VAL
42
A
ILE
43
n
43
ILE
43
A
CYS
44
n
44
CYS
44
A
THR
45
n
45
THR
45
A
ALA
46
n
46
ALA
46
A
GLU
47
n
47
GLU
47
A
ASP
48
n
48
ASP
48
A
MET
49
n
49
MET
49
A
LEU
50
n
50
LEU
50
A
ASN
51
n
51
ASN
51
A
PRO
52
n
52
PRO
52
A
ASN
53
n
53
ASN
53
A
TYR
54
n
54
TYR
54
A
GLU
55
n
55
GLU
55
A
ASP
56
n
56
ASP
56
A
LEU
57
n
57
LEU
57
A
LEU
58
n
58
LEU
58
A
ILE
59
n
59
ILE
59
A
ARG
60
n
60
ARG
60
A
LYS
61
n
61
LYS
61
A
SER
62
n
62
SER
62
A
ASN
63
n
63
ASN
63
A
HIS
64
n
64
HIS
64
A
SER
65
n
65
SER
65
A
PHE
66
n
66
PHE
66
A
LEU
67
n
67
LEU
67
A
VAL
68
n
68
VAL
68
A
GLN
69
n
69
GLN
69
A
ALA
70
n
70
ALA
70
A
GLY
71
n
71
GLY
71
A
ASN
72
n
72
ASN
72
A
VAL
73
n
73
VAL
73
A
GLN
74
n
74
GLN
74
A
LEU
75
n
75
LEU
75
A
ARG
76
n
76
ARG
76
A
VAL
77
n
77
VAL
77
A
ILE
78
n
78
ILE
78
A
GLY
79
n
79
GLY
79
A
HIS
80
n
80
HIS
80
A
SER
81
n
81
SER
81
A
MET
82
n
82
MET
82
A
GLN
83
n
83
GLN
83
A
ASN
84
n
84
ASN
84
A
CYS
85
n
85
CYS
85
A
LEU
86
n
86
LEU
86
A
LEU
87
n
87
LEU
87
A
ARG
88
n
88
ARG
88
A
LEU
89
n
89
LEU
89
A
LYS
90
n
90
LYS
90
A
VAL
91
n
91
VAL
91
A
ASP
92
n
92
ASP
92
A
THR
93
n
93
THR
93
A
SER
94
n
94
SER
94
A
ASN
95
n
95
ASN
95
A
PRO
96
n
96
PRO
96
A
LYS
97
n
97
LYS
97
A
THR
98
n
98
THR
98
A
PRO
99
n
99
PRO
99
A
LYS
100
n
100
LYS
100
A
TYR
101
n
101
TYR
101
A
LYS
102
n
102
LYS
102
A
PHE
103
n
103
PHE
103
A
VAL
104
n
104
VAL
104
A
ARG
105
n
105
ARG
105
A
ILE
106
n
106
ILE
106
A
GLN
107
n
107
GLN
107
A
PRO
108
n
108
PRO
108
A
GLY
109
n
109
GLY
109
A
GLN
110
n
110
GLN
110
A
THR
111
n
111
THR
111
A
PHE
112
n
112
PHE
112
A
SER
113
n
113
SER
113
A
VAL
114
n
114
VAL
114
A
LEU
115
n
115
LEU
115
A
ALA
116
n
116
ALA
116
A
CYS
117
n
117
CYS
117
A
TYR
118
n
118
TYR
118
A
ASN
119
n
119
ASN
119
A
GLY
120
n
120
GLY
120
A
SER
121
n
121
SER
121
A
PRO
122
n
122
PRO
122
A
SER
123
n
123
SER
123
A
GLY
124
n
124
GLY
124
A
VAL
125
n
125
VAL
125
A
TYR
126
n
126
TYR
126
A
GLN
127
n
127
GLN
127
A
CYS
128
n
128
CYS
128
A
ALA
129
n
129
ALA
129
A
MET
130
n
130
MET
130
A
ARG
131
n
131
ARG
131
A
PRO
132
n
132
PRO
132
A
ASN
133
n
133
ASN
133
A
HIS
134
n
134
HIS
134
A
THR
135
n
135
THR
135
A
ILE
136
n
136
ILE
136
A
LYS
137
n
137
LYS
137
A
GLY
138
n
138
GLY
138
A
SER
139
n
139
SER
139
A
PHE
140
n
140
PHE
140
A
LEU
141
n
141
LEU
141
A
ASN
142
n
142
ASN
142
A
GLY
143
n
143
GLY
143
A
SER
144
n
144
SER
144
A
CYS
145
n
145
CYS
145
A
GLY
146
n
146
GLY
146
A
SER
147
n
147
SER
147
A
VAL
148
n
148
VAL
148
A
GLY
149
n
149
GLY
149
A
PHE
150
n
150
PHE
150
A
ASN
151
n
151
ASN
151
A
ILE
152
n
152
ILE
152
A
ASP
153
n
153
ASP
153
A
TYR
154
n
154
TYR
154
A
ASP
155
n
155
ASP
155
A
CYS
156
n
156
CYS
156
A
VAL
157
n
157
VAL
157
A
SER
158
n
158
SER
158
A
PHE
159
n
159
PHE
159
A
CYS
160
n
160
CYS
160
A
TYR
161
n
161
TYR
161
A
MET
162
n
162
MET
162
A
HIS
163
n
163
HIS
163
A
HIS
164
n
164
HIS
164
A
MET
165
n
165
MET
165
A
GLU
166
n
166
GLU
166
A
LEU
167
n
167
LEU
167
A
PRO
168
n
168
PRO
168
A
THR
169
n
169
THR
169
A
GLY
170
n
170
GLY
170
A
VAL
171
n
171
VAL
171
A
HIS
172
n
172
HIS
172
A
ALA
173
n
173
ALA
173
A
GLY
174
n
174
GLY
174
A
THR
175
n
175
THR
175
A
ASP
176
n
176
ASP
176
A
LEU
177
n
177
LEU
177
A
GLU
178
n
178
GLU
178
A
GLY
179
n
179
GLY
179
A
LYS
180
n
180
LYS
180
A
PHE
181
n
181
PHE
181
A
TYR
182
n
182
TYR
182
A
GLY
183
n
183
GLY
183
A
PRO
184
n
184
PRO
184
A
PHE
185
n
185
PHE
185
A
VAL
186
n
186
VAL
186
A
ASP
187
n
187
ASP
187
A
ARG
188
n
188
ARG
188
A
GLN
189
n
189
GLN
189
A
THR
190
n
190
THR
190
A
ALA
191
n
191
ALA
191
A
GLN
192
n
192
GLN
192
A
ALA
193
n
193
ALA
193
A
ALA
194
n
194
ALA
194
A
GLY
195
n
195
GLY
195
A
THR
196
n
196
THR
196
A
ASP
197
n
197
ASP
197
A
THR
198
n
198
THR
198
A
THR
199
n
199
THR
199
A
ILE
200
n
200
ILE
200
A
THR
201
n
201
THR
201
A
LEU
202
n
202
LEU
202
A
ASN
203
n
203
ASN
203
A
VAL
204
n
204
VAL
204
A
LEU
205
n
205
LEU
205
A
ALA
206
n
206
ALA
206
A
TRP
207
n
207
TRP
207
A
LEU
208
n
208
LEU
208
A
TYR
209
n
209
TYR
209
A
ALA
210
n
210
ALA
210
A
ALA
211
n
211
ALA
211
A
VAL
212
n
212
VAL
212
A
ILE
213
n
213
ILE
213
A
ASN
214
n
214
ASN
214
A
GLY
215
n
215
GLY
215
A
ASP
216
n
216
ASP
216
A
ARG
217
n
217
ARG
217
A
TRP
218
n
218
TRP
218
A
PHE
219
n
219
PHE
219
A
LEU
220
n
220
LEU
220
A
ASN
221
n
221
ASN
221
A
ARG
222
n
222
ARG
222
A
PHE
223
n
223
PHE
223
A
THR
224
n
224
THR
224
A
THR
225
n
225
THR
225
A
THR
226
n
226
THR
226
A
LEU
227
n
227
LEU
227
A
ASN
228
n
228
ASN
228
A
ASP
229
n
229
ASP
229
A
PHE
230
n
230
PHE
230
A
ASN
231
n
231
ASN
231
A
LEU
232
n
232
LEU
232
A
VAL
233
n
233
VAL
233
A
ALA
234
n
234
ALA
234
A
MET
235
n
235
MET
235
A
LYS
236
n
236
LYS
236
A
TYR
237
n
237
TYR
237
A
ASN
238
n
238
ASN
238
A
TYR
239
n
239
TYR
239
A
GLU
240
n
240
GLU
240
A
PRO
241
n
241
PRO
241
A
LEU
242
n
242
LEU
242
A
THR
243
n
243
THR
243
A
GLN
244
n
244
GLN
244
A
ASP
245
n
245
ASP
245
A
HIS
246
n
246
HIS
246
A
VAL
247
n
247
VAL
247
A
ASP
248
n
248
ASP
248
A
ILE
249
n
249
ILE
249
A
LEU
250
n
250
LEU
250
A
GLY
251
n
251
GLY
251
A
PRO
252
n
252
PRO
252
A
LEU
253
n
253
LEU
253
A
SER
254
n
254
SER
254
A
ALA
255
n
255
ALA
255
A
GLN
256
n
256
GLN
256
A
THR
257
n
257
THR
257
A
GLY
258
n
258
GLY
258
A
ILE
259
n
259
ILE
259
A
ALA
260
n
260
ALA
260
A
VAL
261
n
261
VAL
261
A
LEU
262
n
262
LEU
262
A
ASP
263
n
263
ASP
263
A
MET
264
n
264
MET
264
A
CYS
265
n
265
CYS
265
A
ALA
266
n
266
ALA
266
A
ALA
267
n
267
ALA
267
A
LEU
268
n
268
LEU
268
A
LYS
269
n
269
LYS
269
A
GLU
270
n
270
GLU
270
A
LEU
271
n
271
LEU
271
A
LEU
272
n
272
LEU
272
A
GLN
273
n
273
GLN
273
A
ASN
274
n
274
ASN
274
A
GLY
275
n
275
GLY
275
A
MET
276
n
276
MET
276
A
ASN
277
n
277
ASN
277
A
GLY
278
n
278
GLY
278
A
ARG
279
n
279
ARG
279
A
THR
280
n
280
THR
280
A
ILE
281
n
281
ILE
281
A
LEU
282
n
282
LEU
282
A
GLY
283
n
283
GLY
283
A
SER
284
n
284
SER
284
A
THR
285
n
285
THR
285
A
ILE
286
n
286
ILE
286
A
LEU
287
n
287
LEU
287
A
GLU
288
n
288
GLU
288
A
ASP
289
n
289
ASP
289
A
GLU
290
n
290
GLU
290
A
PHE
291
n
291
PHE
291
A
THR
292
n
292
THR
292
A
PRO
293
n
293
PRO
293
A
PHE
294
n
294
PHE
294
A
ASP
295
n
295
ASP
295
A
VAL
296
n
296
VAL
296
A
VAL
297
n
297
VAL
297
A
ARG
298
n
298
ARG
298
A
GLN
299
n
299
GLN
299
A
CYS
300
n
300
CYS
300
A
SER
301
n
301
SER
301
A
GLY
302
n
302
GLY
302
A
VAL
303
n
303
VAL
303
A
THR
304
n
304
THR
304
A
PHE
305
n
305
PHE
305
A
GLN
306
n
306
GLN
306
A
ACE
1
n
1
ACE
1
I
VAL
2
n
2
VAL
2
I
Z3E
3
n
3
Z3E
3
I
LEU
4
n
4
LEU
4
I
KCQ
6
n
5
KCQ
6
I
author_defined_assembly
4
tetrameric
software_defined_assembly
PISA
2
dimeric
6630
-31
25640
I
Z3E
3
O-BENZYL-L-THREONINE
B
Z3E
3
THR
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
LEU
75
A
O
LEU
75
A
N
VAL
68
A
N
VAL
68
A
O
GLN
69
A
O
GLN
69
A
N
GLN
19
A
N
GLN
19
A
N
VAL
20
A
N
VAL
20
A
O
LEU
27
A
O
LEU
27
A
N
LEU
32
A
N
LEU
32
A
O
THR
35
A
O
THR
35
A
N
VAL
36
A
N
VAL
36
A
O
LEU
89
A
O
LEU
89
A
O
LYS
90
A
O
LYS
90
A
N
ILE
78
A
N
ILE
78
A
N
LYS
100
A
N
LYS
100
A
O
VAL
157
A
O
VAL
157
A
O
CYS
156
A
O
CYS
156
A
N
ASP
153
A
N
ASP
153
A
O
VAL
148
A
O
VAL
148
A
N
LEU
115
A
N
LEU
115
A
N
VAL
114
A
N
VAL
114
A
O
TYR
126
A
O
TYR
126
A
N
LYS
100
A
N
LYS
100
A
O
VAL
157
A
O
VAL
157
A
N
MET
165
A
N
MET
165
A
O
ALA
173
A
O
ALA
173
1
A
HOH
966
E
HOH
1
9.00
1.20
111.50
120.50
A
A
A
CB
CA
C
CYS
CYS
CYS
145
145
145
N
1
8.66
0.90
118.30
126.96
A
A
A
CB
CG
OD1
ASP
ASP
ASP
176
176
176
N
1
-5.92
0.90
118.30
112.38
A
A
A
CB
CG
OD2
ASP
ASP
ASP
176
176
176
N
1
A
A
CD
OE2
GLU
GLU
47
47
0.098
0.011
1.252
1.350
N
1
A
A
CB
SG
CYS
CYS
265
265
-0.096
0.016
1.812
1.716
N
1
A
ASP
33
45.14
-130.66
1
A
ASP
48
-106.59
49.65
1
A
ASN
51
-154.11
73.40
1
A
HIS
80
-170.87
144.86
1
A
ASN
84
56.30
-120.98
1
A
TYR
154
66.64
-120.38
1
A
ASP
176
-59.93
-171.20
1
A
ASP
187
-96.05
57.86
1
A
ARG
222
-79.42
24.83
1
A
ASN
277
-8.30
116.86
32.661
-1.67
0.00
1.37
2.61
0.00
-0.25
0.942
0.894
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.23123
0.18746
0.18952
2.32
15.47
872
16658
5.0
89.03
13.202
0.173
RANDOM
1
THROUGHOUT
0
0
MOLECULAR REPLACEMENT
0.311
0.253
0.80
0.80
1.20
2A5A
MAXIMUM LIKELIHOOD
MASK
2.32
15.47
207
2634
12
0
2415
0.020
0.022
2524
1.956
1.968
3431
8.412
5.000
313
36.777
24.182
110
17.534
15.000
403
23.940
15.000
13
0.127
0.200
384
0.007
0.020
1916
0.229
0.200
1129
0.308
0.200
1652
0.217
0.200
121
0.262
0.200
54
0.257
0.200
10
0.831
1.500
1602
1.320
2.000
2537
2.170
3.000
1034
3.128
4.500
892
0.282
0.234
2.379
59
1090
1149
20
81.26
2.32
15.47
2Z3E
19683
18207
0
0
0.061
0.061
1
8.9
92.5
0.186
2.32
2.45
5.4
2868
0.186
1
92.8
refinement
REFMAC
5.2.0005
data collection
Blu-Ice
data reduction
MOSFLM
data scaling
SCALA
phasing
MOLREP
A Mechanistic view of Enzyme Inhibition and Peptide Hydrolysis in the Active Site of the SARS-CoV 3C-Like peptidase
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
4
N
N
A
SER
10
A
SER
10
HELX_P
A
GLY
15
A
GLY
15
1
1
6
A
HIS
41
A
HIS
41
HELX_P
A
CYS
44
A
CYS
44
5
2
4
A
ASN
53
A
ASN
53
HELX_P
A
ARG
60
A
ARG
60
1
3
8
A
SER
62
A
SER
62
HELX_P
A
HIS
64
A
HIS
64
5
4
3
A
ILE
200
A
ILE
200
HELX_P
A
GLY
215
A
GLY
215
1
5
16
A
THR
226
A
THR
226
HELX_P
A
TYR
237
A
TYR
237
1
6
12
A
THR
243
A
THR
243
HELX_P
A
LEU
250
A
LEU
250
1
7
8
A
LEU
250
A
LEU
250
HELX_P
A
GLY
258
A
GLY
258
1
8
9
A
ALA
260
A
ALA
260
HELX_P
A
GLY
275
A
GLY
275
1
9
16
A
THR
292
A
THR
292
HELX_P
A
CYS
300
A
CYS
300
1
10
9
covale
1.806
one
A
CYS
145
A
SG
CYS
145
1_555
I
KCQ
6
B
CMK
KCQ
5
1_555
covale
1.330
both
I
ACE
1
B
C
ACE
1
1_555
I
VAL
2
B
N
VAL
2
1_555
covale
1.363
both
I
VAL
2
B
C
VAL
2
1_555
I
Z3E
3
B
N
Z3E
3
1_555
covale
1.351
both
I
Z3E
3
B
C
Z3E
3
1_555
I
LEU
4
B
N
LEU
4
1_555
HYDROLASE/HYDROLASE INHIBITOR
SARS, 3C-like peptidase, 3CL, main proteinase, viral cysteine protease, HYDROLASE-HYDROLASE INHIBITOR COMPLEX, VIRAL PROTEIN
R1AB_CVHSA
UNP
1
3241
P59641
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
2Z3E
PDB
2
2Z3E
3241
3546
2Z3E
1
306
P59641
A
1
1
306
1
6
2Z3E
1
6
2Z3E
I
2
1
5
7
5
3
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
anti-parallel
anti-parallel
parallel
anti-parallel
A
VAL
73
A
VAL
73
A
LEU
75
A
LEU
75
A
PHE
66
A
PHE
66
A
ALA
70
A
ALA
70
A
MET
17
A
MET
17
A
CYS
22
A
CYS
22
A
THR
25
A
THR
25
A
LEU
32
A
LEU
32
A
THR
35
A
THR
35
A
PRO
39
A
PRO
39
A
LEU
86
A
LEU
86
A
VAL
91
A
VAL
91
A
VAL
77
A
VAL
77
A
GLN
83
A
GLN
83
A
LYS
100
A
LYS
100
A
PHE
103
A
PHE
103
A
CYS
156
A
CYS
156
A
GLU
166
A
GLU
166
A
VAL
148
A
VAL
148
A
ASP
153
A
ASP
153
A
THR
111
A
THR
111
A
TYR
118
A
TYR
118
A
SER
121
A
SER
121
A
ALA
129
A
ALA
129
A
LYS
100
A
LYS
100
A
PHE
103
A
PHE
103
A
CYS
156
A
CYS
156
A
GLU
166
A
GLU
166
A
HIS
172
A
HIS
172
A
THR
175
A
THR
175
BINDING SITE FOR RESIDUE GOL A 801
A
GOL
801
Software
8
BINDING SITE FOR RESIDUE GOL A 802
A
GOL
802
Software
3
BINDING SITE FOR CHAIN I OF ACE VAL Z3E LEU KCQ PEPTIDE
Software
17
A
LYS
5
A
LYS
5
8
2_554
A
LYS
5
A
LYS
5
8
1_555
A
ALA
7
A
ALA
7
8
1_555
A
VAL
125
A
VAL
125
8
2_554
A
TYR
126
A
TYR
126
8
2_554
A
TYR
126
A
TYR
126
8
1_555
A
GLN
127
A
GLN
127
8
1_555
A
GLN
127
A
GLN
127
8
2_554
A
ASN
63
A
ASN
63
3
1_555
A
GLY
79
A
GLY
79
3
1_555
A
HIS
80
A
HIS
80
3
1_555
A
HIS
41
A
HIS
41
17
1_555
A
MET
49
A
MET
49
17
1_555
A
PHE
140
A
PHE
140
17
1_555
A
ASN
142
A
ASN
142
17
1_555
A
GLY
143
A
GLY
143
17
1_555
A
SER
144
A
SER
144
17
1_555
A
CYS
145
A
CYS
145
17
1_555
A
HIS
163
A
HIS
163
17
1_555
A
HIS
164
A
HIS
164
17
1_555
A
MET
165
A
MET
165
17
1_555
A
GLU
166
A
GLU
166
17
1_555
A
PRO
168
A
PRO
168
17
1_555
A
HIS
172
A
HIS
172
17
1_555
A
GLN
189
A
GLN
189
17
1_555
A
THR
190
A
THR
190
17
1_555
A
HOH
865
E
HOH
17
1_555
I
HOH
1008
F
HOH
17
1_555
5
C 1 2 1