0.009372
0.000000
0.002625
0.000000
0.011951
0.000000
0.000000
0.000000
0.019645
0.00000
0.00000
0.00000
Lee, T.-W.
Cherney, M.M.
Huitema, C.
Liu, J.
James, K.E.
Powers, J.C.
Eltis, L.D.
James, M.N.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
105.65
90.00
106.703
83.677
52.862
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
C32 H43 N5 O9
641.712
(5S,8S,14R)-ETHYL 11-(3-AMINO-3-OXOPROPYL)-8-BENZYL-14-HYDROXY-5-ISOBUTYL-3,6,9,12-TETRAOXO-1-PHENYL-2-OXA-4,7,10,11-TETRAAZAPENTADECAN-15-OATE
non-polymer
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C2 H6 O2
62.068
1,2-ETHANEDIOL
ETHYLENE GLYCOL
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
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
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
C5 H11 N O2 S
149.211
y
METHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C11 H12 N2 O2
204.225
y
TRYPTOPHAN
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
N
1
N
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
N
C
N
76
N
O
N
77
N
C
Y
78
N
C
Y
79
N
C
Y
80
N
C
Y
81
N
C
Y
82
N
C
Y
83
N
C
N
84
N
O
N
85
S
C
N
86
N
C
N
87
N
C
N
88
N
C
N
89
N
C
N
90
N
C
N
91
N
O
N
92
N
N
N
93
S
C
N
94
N
C
Y
95
N
C
Y
96
N
C
Y
97
N
C
Y
98
N
C
Y
99
N
C
Y
100
N
C
N
101
N
C
N
102
N
O
N
103
N
N
N
104
N
N
N
105
N
C
N
106
N
C
N
107
N
C
N
108
N
N
N
109
N
O
N
110
N
C
N
111
N
O
N
112
N
C
N
113
S
C
N
114
N
O
N
115
N
C
N
116
N
O
N
117
N
O
N
118
N
C
N
119
N
C
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
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
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
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
N
H
N
154
N
H
N
155
N
H
N
156
N
H
N
157
N
H
N
158
N
H
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
N
N
164
R
C
N
165
N
C
N
166
N
O
N
167
N
C
N
168
N
S
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
C
N
178
N
O
N
179
N
C
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
N
N
188
S
C
N
189
N
C
N
190
N
O
N
191
N
C
N
192
N
C
N
193
N
C
N
194
N
O
N
195
N
N
N
196
N
O
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
N
N
208
S
C
N
209
N
C
N
210
N
O
N
211
N
C
N
212
N
C
N
213
N
C
N
214
N
O
N
215
N
O
N
216
N
O
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
N
N
227
N
C
N
228
N
C
N
229
N
O
N
230
N
O
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
C
N
237
N
O
N
238
N
C
N
239
N
O
N
240
N
C
N
241
N
O
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
N
Y
257
N
C
Y
258
N
C
Y
259
N
N
N
260
N
O
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
O
N
272
N
H
N
273
N
H
N
274
N
N
N
275
S
C
N
276
N
C
N
277
N
O
N
278
S
C
N
279
N
C
N
280
N
C
N
281
N
C
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
N
N
297
S
C
N
298
N
C
N
299
N
O
N
300
N
C
N
301
N
C
N
302
N
C
N
303
N
C
N
304
N
O
N
305
N
H
N
306
N
H
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
N
323
N
C
N
324
N
C
N
325
N
C
N
326
N
N
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
H
N
338
N
H
N
339
N
H
N
340
N
H
N
341
N
H
N
342
N
H
N
343
N
N
N
344
S
C
N
345
N
C
N
346
N
O
N
347
N
C
N
348
N
C
N
349
N
S
N
350
N
C
N
351
N
O
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
N
N
364
S
C
N
365
N
C
N
366
N
O
N
367
N
C
Y
368
N
C
Y
369
N
C
Y
370
N
C
Y
371
N
C
Y
372
N
C
Y
373
N
C
N
374
N
O
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
N
N
387
S
C
N
388
N
C
N
389
N
O
N
390
N
C
N
391
N
C
N
392
N
C
N
393
N
O
N
394
N
H
N
395
N
H
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
N
C
N
408
N
O
N
409
N
O
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
N
N
418
S
C
N
419
N
C
N
420
N
O
N
421
R
C
N
422
N
O
N
423
N
C
N
424
N
O
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
432
N
H
N
433
N
H
N
434
N
N
N
435
S
C
N
436
N
C
N
437
N
O
N
438
N
C
Y
439
N
C
Y
440
N
C
Y
441
N
C
Y
442
N
N
Y
443
N
C
Y
444
N
C
Y
445
N
C
Y
446
N
C
Y
447
N
C
N
448
N
O
N
449
N
H
N
450
N
H
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
N
N
462
S
C
N
463
N
C
N
464
N
O
N
465
N
C
Y
466
N
C
Y
467
N
C
Y
468
N
C
Y
469
N
C
Y
470
N
C
Y
471
N
C
N
472
N
O
N
473
N
O
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
481
N
H
N
482
N
H
N
483
N
H
N
484
N
H
N
485
N
N
N
486
S
C
N
487
N
C
N
488
N
O
N
489
N
C
N
490
N
C
N
491
N
C
N
492
N
O
N
493
N
H
N
494
N
H
N
495
N
H
N
496
N
H
N
497
N
H
N
498
N
H
N
499
N
H
N
500
N
H
N
501
N
H
N
502
N
H
N
503
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
doub
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
Y
79
N
doub
Y
80
N
sing
Y
81
N
sing
N
82
N
sing
Y
83
N
doub
N
84
N
sing
Y
85
N
sing
N
86
N
sing
Y
87
N
doub
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
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
doub
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
Y
115
N
doub
Y
116
N
sing
Y
117
N
sing
N
118
N
sing
Y
119
N
doub
N
120
N
sing
Y
121
N
sing
N
122
N
sing
Y
123
N
doub
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
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
doub
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
sing
N
151
N
doub
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
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
doub
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
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
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
doub
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
doub
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
doub
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
doub
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
doub
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
sing
N
246
N
sing
N
247
N
doub
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
Y
252
N
sing
Y
253
N
doub
Y
254
N
doub
N
255
N
sing
Y
256
N
sing
N
257
N
sing
Y
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
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
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
doub
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
doub
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
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
doub
N
337
N
sing
N
338
N
sing
N
339
N
sing
N
340
N
sing
N
341
N
sing
N
342
N
sing
N
343
N
sing
N
344
N
sing
N
345
N
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
doub
N
356
N
sing
N
357
N
sing
N
358
N
sing
N
359
N
sing
Y
360
N
doub
Y
361
N
sing
Y
362
N
sing
N
363
N
sing
Y
364
N
doub
N
365
N
sing
Y
366
N
doub
N
367
N
sing
Y
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
doub
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
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
doub
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
N
419
N
sing
N
420
N
sing
N
421
N
sing
N
422
N
sing
N
423
N
sing
N
424
N
doub
N
425
N
sing
N
426
N
sing
N
427
N
sing
N
428
N
sing
Y
429
N
doub
Y
430
N
sing
Y
431
N
sing
N
432
N
sing
Y
433
N
doub
Y
434
N
sing
Y
435
N
sing
N
436
N
sing
Y
437
N
sing
Y
438
N
doub
N
439
N
sing
Y
440
N
doub
N
441
N
sing
Y
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
N
451
N
sing
N
452
N
doub
N
453
N
sing
N
454
N
sing
N
455
N
sing
N
456
N
sing
Y
457
N
doub
Y
458
N
sing
Y
459
N
sing
N
460
N
sing
Y
461
N
doub
N
462
N
sing
Y
463
N
doub
N
464
N
sing
Y
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
N
475
N
sing
N
476
N
doub
N
477
N
sing
N
478
N
sing
N
479
N
sing
N
480
N
sing
N
481
N
sing
N
482
N
sing
N
483
N
sing
N
484
N
sing
N
485
N
sing
N
486
N
sing
N
487
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
353
1137
1151
10.1016/j.jmb.2005.09.004
16219322
Crystal Structures of the Main Peptidase from the SARS Coronavirus Inhibited by a Substrate-like Aza-peptide Epoxide
2005
10.2210/pdb2a5i/pdb
pdb_00002a5i
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
CCD
2004-11-17
ADSC QUANTUM 210
SINGLE WAVELENGTH
M
x-ray
1
1.115869
1.0
8.3.1
ALS
1.115869
SYNCHROTRON
ALS BEAMLINE 8.3.1
33876.637
3C-like peptidase
3.4.22.-
1
man
polymer
641.712
(5S,8S,14R)-ETHYL 11-(3-AMINO-3-OXOPROPYL)-8-BENZYL-14-HYDROXY-5-ISOBUTYL-3,6,9,12-TETRAOXO-1-PHENYL-2-OXA-4,7,10,11-TETRAAZAPENTADECAN-15-OATE
1
syn
non-polymer
62.068
1,2-ETHANEDIOL
1
syn
non-polymer
92.094
GLYCEROL
1
syn
non-polymer
18.015
water
256
nat
water
3CL-PRO, 3CLp, NSP2
no
no
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
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
SARS
Escherichia
sample
227859
SARS coronavirus
562
Escherichia coli
GJ1158
plasmid
PT7HSP2
1
3.35
63.31
VAPOR DIFFUSION, HANGING DROP
6.5
ammonium acetate, PEG 10000, ethylene glycol, dimethyl sulfoxide, dithiothreitol, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
chem_comp_atom
chem_comp_bond
database_2
pdbx_initial_refinement_model
struct_conn
struct_site
repository
Initial release
Version format compliance
Derived calculations
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2005-10-25
1
1
2008-04-30
1
2
2011-07-13
1
3
2023-08-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_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_asym_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
Crystal structure of SARS coronavirus main peptidase unbound in the space group C2
HETEROGEN
BEFORE BINDING TO THE PEPTIDASE, CBM, CBO AND OBN FORM AN EPOXIDE RING IN AZP. UPON BINDING TO THE PEPTIDASE, CYS145 SG NUCLEOPHILLICALLY ATTACKS CBM, RESULTING IN THE OPENING OF THE RING AND THE INVERSION OF THE CONFIGURATIONS OF CBM AND CBO.
RCSB
Y
RCSB
2005-06-30
REL
REL
AZP
(5S,8S,14R)-ETHYL 11-(3-AMINO-3-OXOPROPYL)-8-BENZYL-14-HYDROXY-5-ISOBUTYL-3,6,9,12-TETRAOXO-1-PHENYL-2-OXA-4,7,10,11-TETRAAZAPENTADECAN-15-OATE
EDO
1,2-ETHANEDIOL
GOL
GLYCEROL
HOH
water
2A5A
pdb entry 2A5A
PDB
experimental model
AZP
307
2
AZP
AZP
307
A
EGL
303
3
EDO
EDO
308
A
CRY
302
4
GOL
GOL
309
A
HOH
2
5
HOH
HOH
310
A
HOH
3
5
HOH
HOH
311
A
HOH
4
5
HOH
HOH
312
A
HOH
5
5
HOH
HOH
313
A
HOH
6
5
HOH
HOH
314
A
HOH
7
5
HOH
HOH
315
A
HOH
8
5
HOH
HOH
316
A
HOH
9
5
HOH
HOH
317
A
HOH
10
5
HOH
HOH
318
A
HOH
11
5
HOH
HOH
319
A
HOH
12
5
HOH
HOH
320
A
HOH
13
5
HOH
HOH
321
A
HOH
14
5
HOH
HOH
322
A
HOH
15
5
HOH
HOH
323
A
HOH
16
5
HOH
HOH
324
A
HOH
17
5
HOH
HOH
325
A
HOH
18
5
HOH
HOH
326
A
HOH
20
5
HOH
HOH
327
A
HOH
21
5
HOH
HOH
328
A
HOH
22
5
HOH
HOH
329
A
HOH
23
5
HOH
HOH
330
A
HOH
24
5
HOH
HOH
331
A
HOH
25
5
HOH
HOH
332
A
HOH
26
5
HOH
HOH
333
A
HOH
27
5
HOH
HOH
334
A
HOH
28
5
HOH
HOH
335
A
HOH
29
5
HOH
HOH
336
A
HOH
30
5
HOH
HOH
337
A
HOH
31
5
HOH
HOH
338
A
HOH
32
5
HOH
HOH
339
A
HOH
33
5
HOH
HOH
340
A
HOH
34
5
HOH
HOH
341
A
HOH
35
5
HOH
HOH
342
A
HOH
36
5
HOH
HOH
343
A
HOH
37
5
HOH
HOH
344
A
HOH
38
5
HOH
HOH
345
A
HOH
39
5
HOH
HOH
346
A
HOH
40
5
HOH
HOH
347
A
HOH
41
5
HOH
HOH
348
A
HOH
42
5
HOH
HOH
349
A
HOH
43
5
HOH
HOH
350
A
HOH
44
5
HOH
HOH
351
A
HOH
45
5
HOH
HOH
352
A
HOH
46
5
HOH
HOH
353
A
HOH
47
5
HOH
HOH
354
A
HOH
48
5
HOH
HOH
355
A
HOH
49
5
HOH
HOH
356
A
HOH
50
5
HOH
HOH
357
A
HOH
51
5
HOH
HOH
358
A
HOH
52
5
HOH
HOH
359
A
HOH
53
5
HOH
HOH
360
A
HOH
54
5
HOH
HOH
361
A
HOH
55
5
HOH
HOH
362
A
HOH
56
5
HOH
HOH
363
A
HOH
57
5
HOH
HOH
364
A
HOH
58
5
HOH
HOH
365
A
HOH
59
5
HOH
HOH
366
A
HOH
60
5
HOH
HOH
367
A
HOH
61
5
HOH
HOH
368
A
HOH
62
5
HOH
HOH
369
A
HOH
63
5
HOH
HOH
370
A
HOH
64
5
HOH
HOH
371
A
HOH
65
5
HOH
HOH
372
A
HOH
66
5
HOH
HOH
373
A
HOH
67
5
HOH
HOH
374
A
HOH
68
5
HOH
HOH
375
A
HOH
69
5
HOH
HOH
376
A
HOH
70
5
HOH
HOH
377
A
HOH
71
5
HOH
HOH
378
A
HOH
72
5
HOH
HOH
379
A
HOH
73
5
HOH
HOH
380
A
HOH
74
5
HOH
HOH
381
A
HOH
75
5
HOH
HOH
382
A
HOH
76
5
HOH
HOH
383
A
HOH
77
5
HOH
HOH
384
A
HOH
78
5
HOH
HOH
385
A
HOH
79
5
HOH
HOH
386
A
HOH
80
5
HOH
HOH
387
A
HOH
81
5
HOH
HOH
388
A
HOH
82
5
HOH
HOH
389
A
HOH
83
5
HOH
HOH
390
A
HOH
84
5
HOH
HOH
391
A
HOH
85
5
HOH
HOH
392
A
HOH
86
5
HOH
HOH
393
A
HOH
87
5
HOH
HOH
394
A
HOH
88
5
HOH
HOH
395
A
HOH
89
5
HOH
HOH
396
A
HOH
90
5
HOH
HOH
397
A
HOH
91
5
HOH
HOH
398
A
HOH
92
5
HOH
HOH
399
A
HOH
93
5
HOH
HOH
400
A
HOH
95
5
HOH
HOH
401
A
HOH
96
5
HOH
HOH
402
A
HOH
97
5
HOH
HOH
403
A
HOH
98
5
HOH
HOH
404
A
HOH
99
5
HOH
HOH
405
A
HOH
100
5
HOH
HOH
406
A
HOH
101
5
HOH
HOH
407
A
HOH
102
5
HOH
HOH
408
A
HOH
103
5
HOH
HOH
409
A
HOH
104
5
HOH
HOH
410
A
HOH
105
5
HOH
HOH
411
A
HOH
106
5
HOH
HOH
412
A
HOH
107
5
HOH
HOH
413
A
HOH
108
5
HOH
HOH
414
A
HOH
109
5
HOH
HOH
415
A
HOH
110
5
HOH
HOH
416
A
HOH
111
5
HOH
HOH
417
A
HOH
112
5
HOH
HOH
418
A
HOH
113
5
HOH
HOH
419
A
HOH
114
5
HOH
HOH
420
A
HOH
115
5
HOH
HOH
421
A
HOH
116
5
HOH
HOH
422
A
HOH
117
5
HOH
HOH
423
A
HOH
118
5
HOH
HOH
424
A
HOH
119
5
HOH
HOH
425
A
HOH
120
5
HOH
HOH
426
A
HOH
121
5
HOH
HOH
427
A
HOH
122
5
HOH
HOH
428
A
HOH
123
5
HOH
HOH
429
A
HOH
124
5
HOH
HOH
430
A
HOH
125
5
HOH
HOH
431
A
HOH
126
5
HOH
HOH
432
A
HOH
127
5
HOH
HOH
433
A
HOH
128
5
HOH
HOH
434
A
HOH
129
5
HOH
HOH
435
A
HOH
130
5
HOH
HOH
436
A
HOH
131
5
HOH
HOH
437
A
HOH
132
5
HOH
HOH
438
A
HOH
134
5
HOH
HOH
439
A
HOH
135
5
HOH
HOH
440
A
HOH
136
5
HOH
HOH
441
A
HOH
137
5
HOH
HOH
442
A
HOH
138
5
HOH
HOH
443
A
HOH
139
5
HOH
HOH
444
A
HOH
140
5
HOH
HOH
445
A
HOH
141
5
HOH
HOH
446
A
HOH
142
5
HOH
HOH
447
A
HOH
143
5
HOH
HOH
448
A
HOH
145
5
HOH
HOH
449
A
HOH
146
5
HOH
HOH
450
A
HOH
147
5
HOH
HOH
451
A
HOH
148
5
HOH
HOH
452
A
HOH
149
5
HOH
HOH
453
A
HOH
150
5
HOH
HOH
454
A
HOH
151
5
HOH
HOH
455
A
HOH
152
5
HOH
HOH
456
A
HOH
153
5
HOH
HOH
457
A
HOH
154
5
HOH
HOH
458
A
HOH
155
5
HOH
HOH
459
A
HOH
156
5
HOH
HOH
460
A
HOH
157
5
HOH
HOH
461
A
HOH
158
5
HOH
HOH
462
A
HOH
159
5
HOH
HOH
463
A
HOH
160
5
HOH
HOH
464
A
HOH
161
5
HOH
HOH
465
A
HOH
162
5
HOH
HOH
466
A
HOH
163
5
HOH
HOH
467
A
HOH
164
5
HOH
HOH
468
A
HOH
165
5
HOH
HOH
469
A
HOH
166
5
HOH
HOH
470
A
HOH
167
5
HOH
HOH
471
A
HOH
168
5
HOH
HOH
472
A
HOH
170
5
HOH
HOH
473
A
HOH
171
5
HOH
HOH
474
A
HOH
172
5
HOH
HOH
475
A
HOH
173
5
HOH
HOH
476
A
HOH
174
5
HOH
HOH
477
A
HOH
175
5
HOH
HOH
478
A
HOH
176
5
HOH
HOH
479
A
HOH
177
5
HOH
HOH
480
A
HOH
178
5
HOH
HOH
481
A
HOH
179
5
HOH
HOH
482
A
HOH
180
5
HOH
HOH
483
A
HOH
182
5
HOH
HOH
484
A
HOH
183
5
HOH
HOH
485
A
HOH
184
5
HOH
HOH
486
A
HOH
185
5
HOH
HOH
487
A
HOH
186
5
HOH
HOH
488
A
HOH
187
5
HOH
HOH
489
A
HOH
188
5
HOH
HOH
490
A
HOH
189
5
HOH
HOH
491
A
HOH
190
5
HOH
HOH
492
A
HOH
191
5
HOH
HOH
493
A
HOH
192
5
HOH
HOH
494
A
HOH
193
5
HOH
HOH
495
A
HOH
194
5
HOH
HOH
496
A
HOH
195
5
HOH
HOH
497
A
HOH
196
5
HOH
HOH
498
A
HOH
197
5
HOH
HOH
499
A
HOH
199
5
HOH
HOH
500
A
HOH
200
5
HOH
HOH
501
A
HOH
201
5
HOH
HOH
502
A
HOH
202
5
HOH
HOH
503
A
HOH
203
5
HOH
HOH
504
A
HOH
204
5
HOH
HOH
505
A
HOH
206
5
HOH
HOH
506
A
HOH
207
5
HOH
HOH
507
A
HOH
208
5
HOH
HOH
508
A
HOH
209
5
HOH
HOH
509
A
HOH
211
5
HOH
HOH
510
A
HOH
213
5
HOH
HOH
511
A
HOH
214
5
HOH
HOH
512
A
HOH
216
5
HOH
HOH
513
A
HOH
218
5
HOH
HOH
514
A
HOH
219
5
HOH
HOH
515
A
HOH
220
5
HOH
HOH
516
A
HOH
222
5
HOH
HOH
517
A
HOH
223
5
HOH
HOH
518
A
HOH
225
5
HOH
HOH
519
A
HOH
227
5
HOH
HOH
520
A
HOH
228
5
HOH
HOH
521
A
HOH
229
5
HOH
HOH
522
A
HOH
230
5
HOH
HOH
523
A
HOH
231
5
HOH
HOH
524
A
HOH
232
5
HOH
HOH
525
A
HOH
233
5
HOH
HOH
526
A
HOH
234
5
HOH
HOH
527
A
HOH
235
5
HOH
HOH
528
A
HOH
236
5
HOH
HOH
529
A
HOH
237
5
HOH
HOH
530
A
HOH
238
5
HOH
HOH
531
A
HOH
240
5
HOH
HOH
532
A
HOH
241
5
HOH
HOH
533
A
HOH
243
5
HOH
HOH
534
A
HOH
245
5
HOH
HOH
535
A
HOH
246
5
HOH
HOH
536
A
HOH
247
5
HOH
HOH
537
A
HOH
248
5
HOH
HOH
538
A
HOH
249
5
HOH
HOH
539
A
HOH
250
5
HOH
HOH
540
A
HOH
251
5
HOH
HOH
541
A
HOH
252
5
HOH
HOH
542
A
HOH
253
5
HOH
HOH
543
A
HOH
254
5
HOH
HOH
544
A
HOH
255
5
HOH
HOH
545
A
HOH
264
5
HOH
HOH
546
A
HOH
266
5
HOH
HOH
547
A
HOH
267
5
HOH
HOH
548
A
HOH
268
5
HOH
HOH
549
A
HOH
269
5
HOH
HOH
550
A
HOH
270
5
HOH
HOH
551
A
HOH
271
5
HOH
HOH
552
A
HOH
272
5
HOH
HOH
553
A
HOH
273
5
HOH
HOH
554
A
HOH
274
5
HOH
HOH
555
A
HOH
275
5
HOH
HOH
556
A
HOH
276
5
HOH
HOH
557
A
HOH
277
5
HOH
HOH
558
A
HOH
278
5
HOH
HOH
559
A
HOH
279
5
HOH
HOH
560
A
HOH
280
5
HOH
HOH
561
A
HOH
281
5
HOH
HOH
562
A
HOH
282
5
HOH
HOH
563
A
HOH
283
5
HOH
HOH
564
A
HOH
284
5
HOH
HOH
565
A
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
author_and_software_defined_assembly
PISA
2
dimeric
software_defined_assembly
PQS
1
monomeric
4690
-30
26250
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_556
-x,y,-z+1
crystal symmetry operation
-14.2600655961
0.0000000000
50.9022747350
A
O
VAL
73
A
O
VAL
73
A
N
ALA
70
A
N
ALA
70
A
O
GLN
69
A
O
GLN
69
A
N
GLN
19
A
N
GLN
19
A
N
VAL
18
A
N
VAL
18
A
O
GLY
29
A
O
GLY
29
A
N
LEU
30
A
N
LEU
30
A
O
TYR
37
A
O
TYR
37
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
102
A
N
LYS
102
A
O
PHE
159
A
O
PHE
159
A
O
SER
158
A
O
SER
158
A
N
ASN
151
A
N
ASN
151
A
O
PHE
150
A
O
PHE
150
A
N
SER
113
A
N
SER
113
A
N
ALA
116
A
N
ALA
116
A
O
SER
123
A
O
SER
123
A
N
LYS
102
A
N
LYS
102
A
O
PHE
159
A
O
PHE
159
A
N
MET
165
A
N
MET
165
A
O
ALA
173
A
O
ALA
173
1
A
ASP
92
12.04
1
A
GLY
146
11.76
1
17.31
2.30
115.30
132.61
A
A
A
CA
CB
CG
LEU
LEU
LEU
67
67
67
N
1
-10.71
1.70
111.00
100.29
A
A
A
CB
CG
CD2
LEU
LEU
LEU
67
67
67
N
1
-17.85
2.00
110.40
92.55
A
A
A
CB
CA
C
ASP
ASP
ASP
92
92
92
N
1
-10.78
1.60
100.20
89.42
A
A
A
CG
SD
CE
MET
MET
MET
162
162
162
B
B
B
N
1
A
A
CB
SG
CYS
CYS
117
117
-0.109
0.016
1.812
1.703
N
1
A
A
CB
SG
CYS
CYS
128
128
-0.109
0.016
1.812
1.703
B
B
N
1
A
A
CB
CG
GLU
GLU
240
240
-0.130
0.019
1.517
1.387
N
1
A
A
CB
CG
GLU
GLU
288
288
-0.114
0.019
1.517
1.403
N
1
A
A
O
O
HOH
HOH
357
515
2.15
1_555
2_556
1
A
ASP
33
69.28
-135.84
1
A
ASP
34
-95.80
41.53
1
A
ASN
84
53.33
-122.24
1
A
PRO
108
-48.48
155.64
1
A
TYR
154
53.93
-129.89
1
A
TYR
154
53.93
-125.85
1
A
HIS
164
-132.24
-54.13
1
A
ASN
238
78.36
37.09
1
A
ASN
277
26.65
93.91
1
A
ILE
286
78.29
128.70
43.973
-2.42
0.00
1.19
3.69
0.00
-0.63
0.966
0.951
The low reolution limit for data collection and processing was 50 A. For refinement, `less' low resolution data and the low resolution limit was set upwards to 40 A. But there is actually no data in the resolution range 50 - 32.3 A.
0.24224
0.19813
0.20034
1.88
40.00
1710
32587
5.0
94.21
8.384
0.124
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
0.138
0.137
0.80
0.80
1.20
pdb entry 2A5A
MAXIMUM LIKELIHOOD
MASK
1.88
40.00
256
2683
56
0
2371
0.022
0.022
2554
2.342
1.969
3465
6.615
5.000
313
35.259
24.248
113
16.830
15.000
421
17.907
15.000
13
0.192
0.200
392
0.018
0.020
1934
0.300
0.350
1304
0.340
0.350
1766
0.261
0.350
347
0.308
0.350
56
0.329
0.350
23
1.919
2.000
1590
2.681
3.000
2528
2.002
2.000
1084
2.624
3.000
937
0.305
0.28
1.929
115
2224
20
87.70
1.88
50.00
2A5I
35576
0
0
1
96.3
1.88
1.95
1
90.0
refinement
REFMAC
5.2.0005
data reduction
DENZO
data scaling
SCALEPACK
phasing
AMoRE
Crystal structures of SARS coronavirus main peptidase inhibited by an aza-peptide epoxide in the space group C2
1
N
N
2
N
N
3
N
N
4
N
N
5
N
N
The protease is a homodimer. Each asymmetric unit contains only one protomer. The other protomer of the dimer is generated from the protomer in the asymmetric unit by the operation -x, y, -z.
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
ASN
214
A
ASN
214
1
5
15
A
THR
226
A
THR
226
HELX_P
A
ASN
238
A
ASN
238
1
6
13
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
2.013
none
A
CYS
145
A
SG
CYS
145
1_555
A
AZP
307
B
CBM
AZP
1_555
covale
1.707
none
A
A
EDO
308
C
O1
EDO
2_556
A
GOL
309
D
O3
GOL
1_555
covale
1.707
none
A
A
EDO
308
C
O1
EDO
1_555
A
GOL
309
D
O3
GOL
2_556
HYDROLASE
cysteine peptidase, 3C-like, N-finger, chymotrypsin-like fold, long loop, alpha-helical domain, dimer, catalytic dyad, specificity pockets, aza-peptide epoxide, substrate-like inhibitor, C-S covalent bond, epoxide stereochemistry, HYdrolase
R1AB_CVHSA
UNP
1
3241
P59641
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
3241
3546
2A5I
1
306
P59641
A
1
1
306
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
TYR
101
A
TYR
101
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
TYR
101
A
TYR
101
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 AZP A 307
A
AZP
307
Software
24
BINDING SITE FOR RESIDUE EDO A 308
A
EDO
308
Software
6
BINDING SITE FOR RESIDUE GOL A 309
A
GOL
309
Software
11
A
THR
25
A
THR
25
24
1_555
A
HIS
41
A
HIS
41
24
1_555
A
MET
49
A
MET
49
24
1_555
A
TYR
54
A
TYR
54
24
1_555
A
PHE
140
A
PHE
140
24
1_555
A
LEU
141
A
LEU
141
24
1_555
A
ASN
142
A
ASN
142
24
1_555
A
GLY
143
A
GLY
143
24
1_555
A
SER
144
A
SER
144
24
1_555
A
CYS
145
A
CYS
145
24
1_555
A
HIS
163
A
HIS
163
24
1_555
A
HIS
164
A
HIS
164
24
1_555
A
MET
165
A
MET
165
24
1_555
A
GLU
166
A
GLU
166
24
1_555
A
PRO
168
A
PRO
168
24
1_555
A
HIS
172
A
HIS
172
24
1_555
A
ASP
187
A
ASP
187
24
1_555
A
ARG
188
A
ARG
188
24
1_555
A
GLN
189
A
GLN
189
24
1_555
A
THR
190
A
THR
190
24
1_555
A
GLN
192
A
GLN
192
24
1_555
A
HOH
324
E
HOH
24
1_555
A
HOH
369
E
HOH
24
1_555
A
HOH
416
E
HOH
24
1_555
A
ARG
4
A
ARG
4
6
1_555
A
LYS
5
A
LYS
5
6
1_555
A
LYS
5
A
LYS
5
6
2_556
A
GLN
127
A
GLN
127
6
2_556
A
GOL
309
D
GOL
6
1_555
A
GOL
309
D
GOL
6
2_556
A
LYS
5
A
LYS
5
11
2_556
A
LYS
5
A
LYS
5
11
1_555
A
ALA
7
A
ALA
7
11
1_555
A
VAL
125
A
VAL
125
11
2_556
A
VAL
125
A
VAL
125
11
1_555
A
TYR
126
A
TYR
126
11
1_555
A
TYR
126
A
TYR
126
11
2_556
A
GLN
127
A
GLN
127
11
1_555
A
GLN
127
A
GLN
127
11
2_556
A
EDO
308
C
EDO
11
2_556
A
EDO
308
C
EDO
11
1_555
5
C 1 2 1