0.009160
0.000000
0.002341
-0.000000
0.012214
0.000000
0.000000
-0.000000
0.019293
0.00000
0.00000
0.00000
Zhang, L.
Hilgenfeld, R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
104.34
90.00
109.165
81.873
53.499
C30 H36 N4 O5
532.631
(2~{R},3~{S})-3-[[(2~{S})-3-cyclopropyl-2-[[(~{E})-3-phenylprop-2-enoyl]amino]propanoyl]amino]-2-oxidanyl-4-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-~{N}-(phenylmethyl)butanamide
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
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
To Be Published
0353
Alpha-ketoamides as broad-spectrum inhibitors of coronavirus and enterovirus replication
100
1
PIXEL
2015-05-25
DECTRIS PILATUS 6M
SINGLE WAVELENGTH
M
x-ray
1
0.9919
1.0
P11
PETRA III, DESY
0.9919
SYNCHROTRON
PETRA III, DESY BEAMLINE P11
33876.637
Replicase polyprotein 1ab
3.4.19.12,3.4.22.69,3.4.22.-,2.7.7.48,3.6.4.12,3.6.4.13,2.1.1.-,3.1.13.-,3.1.-.-
1
man
polymer
532.631
(2~{R},3~{S})-3-[[(2~{S})-3-cyclopropyl-2-[[(~{E})-3-phenylprop-2-enoyl]amino]propanoyl]amino]-2-oxidanyl-4-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-~{N}-(phenylmethyl)butanamide
1
syn
non-polymer
18.015
water
214
nat
water
pp1ab,ORF1ab polyprotein
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
sample
1
306
rep, 1a-1b
227859
SARS coronavirus
562
Escherichia coli
Biological sequence
1
3.42
64.02
VAPOR DIFFUSION, SITTING DROP
6.0
6 - 8% polyethylene glycol 6000, 0.1 M MES, pH 6.0
293
repository
Initial release
1
0
2018-03-07
Germany
German Center for Infection Research
TTU 01.803
N
PDBE
Y
PDBE
2017-02-14
REL
REL
1
A
O
HOH
711
5.81
1
A
O
HOH
712
6.72
1
A
O
HOH
713
6.72
1
A
O
HOH
714
8.98
8O5
(2~{R},3~{S})-3-[[(2~{S})-3-cyclopropyl-2-[[(~{E})-3-phenylprop-2-enoyl]amino]propanoyl]amino]-2-oxidanyl-4-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-~{N}-(phenylmethyl)butanamide
HOH
water
D10
1
2
8O5
8O5
401
A
HOH
145
3
HOH
HOH
501
A
HOH
78
3
HOH
HOH
502
A
HOH
198
3
HOH
HOH
503
A
HOH
50
3
HOH
HOH
504
A
HOH
60
3
HOH
HOH
505
A
HOH
105
3
HOH
HOH
506
A
HOH
154
3
HOH
HOH
507
A
HOH
185
3
HOH
HOH
508
A
HOH
11
3
HOH
HOH
509
A
HOH
175
3
HOH
HOH
510
A
HOH
181
3
HOH
HOH
511
A
HOH
37
3
HOH
HOH
512
A
HOH
26
3
HOH
HOH
513
A
HOH
197
3
HOH
HOH
514
A
HOH
55
3
HOH
HOH
515
A
HOH
151
3
HOH
HOH
516
A
HOH
212
3
HOH
HOH
517
A
HOH
39
3
HOH
HOH
518
A
HOH
108
3
HOH
HOH
519
A
HOH
16
3
HOH
HOH
520
A
HOH
134
3
HOH
HOH
521
A
HOH
57
3
HOH
HOH
522
A
HOH
9
3
HOH
HOH
523
A
HOH
139
3
HOH
HOH
524
A
HOH
6
3
HOH
HOH
525
A
HOH
65
3
HOH
HOH
526
A
HOH
84
3
HOH
HOH
527
A
HOH
162
3
HOH
HOH
528
A
HOH
2
3
HOH
HOH
529
A
HOH
77
3
HOH
HOH
530
A
HOH
156
3
HOH
HOH
531
A
HOH
218
3
HOH
HOH
532
A
HOH
119
3
HOH
HOH
533
A
HOH
45
3
HOH
HOH
534
A
HOH
132
3
HOH
HOH
535
A
HOH
92
3
HOH
HOH
536
A
HOH
56
3
HOH
HOH
537
A
HOH
140
3
HOH
HOH
538
A
HOH
202
3
HOH
HOH
539
A
HOH
147
3
HOH
HOH
540
A
HOH
118
3
HOH
HOH
541
A
HOH
14
3
HOH
HOH
542
A
HOH
31
3
HOH
HOH
543
A
HOH
189
3
HOH
HOH
544
A
HOH
190
3
HOH
HOH
545
A
HOH
103
3
HOH
HOH
546
A
HOH
120
3
HOH
HOH
547
A
HOH
4
3
HOH
HOH
548
A
HOH
23
3
HOH
HOH
549
A
HOH
188
3
HOH
HOH
550
A
HOH
214
3
HOH
HOH
551
A
HOH
129
3
HOH
HOH
552
A
HOH
28
3
HOH
HOH
553
A
HOH
10
3
HOH
HOH
554
A
HOH
1
3
HOH
HOH
555
A
HOH
54
3
HOH
HOH
556
A
HOH
99
3
HOH
HOH
557
A
HOH
20
3
HOH
HOH
558
A
HOH
226
3
HOH
HOH
559
A
HOH
67
3
HOH
HOH
560
A
HOH
46
3
HOH
HOH
561
A
HOH
87
3
HOH
HOH
562
A
HOH
193
3
HOH
HOH
563
A
HOH
17
3
HOH
HOH
564
A
HOH
205
3
HOH
HOH
565
A
HOH
88
3
HOH
HOH
566
A
HOH
7
3
HOH
HOH
567
A
HOH
196
3
HOH
HOH
568
A
HOH
86
3
HOH
HOH
569
A
HOH
82
3
HOH
HOH
570
A
HOH
222
3
HOH
HOH
571
A
HOH
5
3
HOH
HOH
572
A
HOH
211
3
HOH
HOH
573
A
HOH
149
3
HOH
HOH
574
A
HOH
97
3
HOH
HOH
575
A
HOH
95
3
HOH
HOH
576
A
HOH
3
3
HOH
HOH
577
A
HOH
69
3
HOH
HOH
578
A
HOH
8
3
HOH
HOH
579
A
HOH
152
3
HOH
HOH
580
A
HOH
165
3
HOH
HOH
581
A
HOH
83
3
HOH
HOH
582
A
HOH
42
3
HOH
HOH
583
A
HOH
25
3
HOH
HOH
584
A
HOH
142
3
HOH
HOH
585
A
HOH
219
3
HOH
HOH
586
A
HOH
74
3
HOH
HOH
587
A
HOH
235
3
HOH
HOH
588
A
HOH
239
3
HOH
HOH
589
A
HOH
15
3
HOH
HOH
590
A
HOH
136
3
HOH
HOH
591
A
HOH
220
3
HOH
HOH
592
A
HOH
13
3
HOH
HOH
593
A
HOH
40
3
HOH
HOH
594
A
HOH
130
3
HOH
HOH
595
A
HOH
135
3
HOH
HOH
596
A
HOH
75
3
HOH
HOH
597
A
HOH
166
3
HOH
HOH
598
A
HOH
73
3
HOH
HOH
599
A
HOH
61
3
HOH
HOH
600
A
HOH
96
3
HOH
HOH
601
A
HOH
191
3
HOH
HOH
602
A
HOH
178
3
HOH
HOH
603
A
HOH
36
3
HOH
HOH
604
A
HOH
158
3
HOH
HOH
605
A
HOH
72
3
HOH
HOH
606
A
HOH
107
3
HOH
HOH
607
A
HOH
93
3
HOH
HOH
608
A
HOH
167
3
HOH
HOH
609
A
HOH
102
3
HOH
HOH
610
A
HOH
159
3
HOH
HOH
611
A
HOH
34
3
HOH
HOH
612
A
HOH
24
3
HOH
HOH
613
A
HOH
122
3
HOH
HOH
614
A
HOH
201
3
HOH
HOH
615
A
HOH
22
3
HOH
HOH
616
A
HOH
70
3
HOH
HOH
617
A
HOH
126
3
HOH
HOH
618
A
HOH
21
3
HOH
HOH
619
A
HOH
62
3
HOH
HOH
620
A
HOH
44
3
HOH
HOH
621
A
HOH
230
3
HOH
HOH
622
A
HOH
125
3
HOH
HOH
623
A
HOH
200
3
HOH
HOH
624
A
HOH
79
3
HOH
HOH
625
A
HOH
199
3
HOH
HOH
626
A
HOH
58
3
HOH
HOH
627
A
HOH
182
3
HOH
HOH
628
A
HOH
94
3
HOH
HOH
629
A
HOH
68
3
HOH
HOH
630
A
HOH
177
3
HOH
HOH
631
A
HOH
141
3
HOH
HOH
632
A
HOH
238
3
HOH
HOH
633
A
HOH
138
3
HOH
HOH
634
A
HOH
81
3
HOH
HOH
635
A
HOH
80
3
HOH
HOH
636
A
HOH
171
3
HOH
HOH
637
A
HOH
85
3
HOH
HOH
638
A
HOH
163
3
HOH
HOH
639
A
HOH
243
3
HOH
HOH
640
A
HOH
216
3
HOH
HOH
641
A
HOH
53
3
HOH
HOH
642
A
HOH
49
3
HOH
HOH
643
A
HOH
106
3
HOH
HOH
644
A
HOH
194
3
HOH
HOH
645
A
HOH
231
3
HOH
HOH
646
A
HOH
35
3
HOH
HOH
647
A
HOH
89
3
HOH
HOH
648
A
HOH
38
3
HOH
HOH
649
A
HOH
183
3
HOH
HOH
650
A
HOH
228
3
HOH
HOH
651
A
HOH
43
3
HOH
HOH
652
A
HOH
18
3
HOH
HOH
653
A
HOH
121
3
HOH
HOH
654
A
HOH
207
3
HOH
HOH
655
A
HOH
153
3
HOH
HOH
656
A
HOH
137
3
HOH
HOH
657
A
HOH
236
3
HOH
HOH
658
A
HOH
170
3
HOH
HOH
659
A
HOH
227
3
HOH
HOH
660
A
HOH
30
3
HOH
HOH
661
A
HOH
155
3
HOH
HOH
662
A
HOH
224
3
HOH
HOH
663
A
HOH
12
3
HOH
HOH
664
A
HOH
131
3
HOH
HOH
665
A
HOH
225
3
HOH
HOH
666
A
HOH
109
3
HOH
HOH
667
A
HOH
204
3
HOH
HOH
668
A
HOH
229
3
HOH
HOH
669
A
HOH
203
3
HOH
HOH
670
A
HOH
128
3
HOH
HOH
671
A
HOH
233
3
HOH
HOH
672
A
HOH
144
3
HOH
HOH
673
A
HOH
112
3
HOH
HOH
674
A
HOH
164
3
HOH
HOH
675
A
HOH
116
3
HOH
HOH
676
A
HOH
66
3
HOH
HOH
677
A
HOH
76
3
HOH
HOH
678
A
HOH
113
3
HOH
HOH
679
A
HOH
127
3
HOH
HOH
680
A
HOH
232
3
HOH
HOH
681
A
HOH
32
3
HOH
HOH
682
A
HOH
41
3
HOH
HOH
683
A
HOH
173
3
HOH
HOH
684
A
HOH
123
3
HOH
HOH
685
A
HOH
33
3
HOH
HOH
686
A
HOH
184
3
HOH
HOH
687
A
HOH
186
3
HOH
HOH
688
A
HOH
242
3
HOH
HOH
689
A
HOH
101
3
HOH
HOH
690
A
HOH
161
3
HOH
HOH
691
A
HOH
174
3
HOH
HOH
692
A
HOH
91
3
HOH
HOH
693
A
HOH
208
3
HOH
HOH
694
A
HOH
111
3
HOH
HOH
695
A
HOH
63
3
HOH
HOH
696
A
HOH
206
3
HOH
HOH
697
A
HOH
234
3
HOH
HOH
698
A
HOH
187
3
HOH
HOH
699
A
HOH
19
3
HOH
HOH
700
A
HOH
209
3
HOH
HOH
701
A
HOH
241
3
HOH
HOH
702
A
HOH
179
3
HOH
HOH
703
A
HOH
47
3
HOH
HOH
704
A
HOH
115
3
HOH
HOH
705
A
HOH
160
3
HOH
HOH
706
A
HOH
148
3
HOH
HOH
707
A
HOH
114
3
HOH
HOH
708
A
HOH
157
3
HOH
HOH
709
A
HOH
237
3
HOH
HOH
710
A
HOH
210
3
HOH
HOH
711
A
HOH
240
3
HOH
HOH
712
A
HOH
117
3
HOH
HOH
713
A
HOH
29
3
HOH
HOH
714
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
2470
-8
26700
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
LEU
67
A
O
LEU
67
A
N
THR
21
A
N
THR
21
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
LEU
86
A
O
LEU
86
A
N
GLN
83
A
N
GLN
83
A
N
LYS
100
A
N
LYS
100
A
O
VAL
157
A
O
VAL
157
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
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
704
C
HOH
1
A
A
O
O
HOH
HOH
535
668
2.15
1
A
TYR
154
0.120
SIDE CHAIN
1
3.60
0.50
120.30
123.90
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
60
60
60
N
1
-3.45
0.50
120.30
116.85
A
A
A
NE
CZ
NH2
ARG
ARG
ARG
60
60
60
N
1
-21.79
0.60
121.00
99.21
A
A
A
CB
CG
CD2
TYR
TYR
TYR
154
154
154
N
1
9.54
1.10
117.90
127.44
A
A
A
CD1
CG
CD2
TYR
TYR
TYR
154
154
154
N
1
-9.79
0.60
121.00
111.21
A
A
A
CB
CG
CD1
TYR
TYR
TYR
154
154
154
N
1
-6.32
0.80
121.30
114.98
A
A
A
CG
CD1
CE1
TYR
TYR
TYR
154
154
154
N
1
-14.16
0.80
121.30
107.14
A
A
A
CG
CD2
CE2
TYR
TYR
TYR
154
154
154
N
1
3.18
0.50
120.30
123.48
A
A
A
NE
CZ
NH1
ARG
ARG
ARG
217
217
217
N
1
A
A
CG
CD2
TYR
TYR
154
154
0.197
0.013
1.387
1.584
N
1
A
A
CG
CD1
TYR
TYR
154
154
-0.334
0.013
1.387
1.053
N
1
A
A
O
O
HOH
HOH
689
689
1.35
1_555
2_555
1
A
ASP
33
52.85
-122.24
1
A
ASN
51
-153.98
64.06
1
A
ASN
84
45.01
-116.41
1
A
HIS
164
-130.67
-39.27
44.062
-2.71
0.00
1.59
1.34
0.00
0.49
0.964
0.937
HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
0.25152
0.19222
0.19512
2.00
43.83
1501
28787
5.0
98.07
4.888
0.128
RANDOM
1
THROUGHOUT
MOLECULAR REPLACEMENT
0.149
0.155
0.80
0.80
1.20
SARS-CoV main protease
MAXIMUM LIKELIHOOD
MASK
2.00
43.83
214
2624
39
0
2371
0.018
0.019
2467
0.002
0.020
2219
1.908
1.965
3351
1.197
3.000
5155
7.345
5.000
307
35.724
24.352
108
16.138
15.000
393
16.862
15.000
12
0.137
0.200
378
0.010
0.021
2778
0.002
0.020
518
3.974
4.216
1228
3.970
4.215
1227
5.142
6.302
1535
5.141
6.303
1536
4.625
4.644
1239
4.623
4.645
1240
6.635
6.791
1814
8.072
50.376
2677
8.071
50.371
2678
0.369
0.296
2.052
114
2138
20
98.30
2.00
43.83
5N5O
30329
0.997
0.060
0.039
1
10.5
3.3
98.3
0.507
2.00
2.11
2.4
4358
0.804
0.331
1
3.3
97.4
refinement
REFMAC
5.8.0158
data scaling
SCALA
phasing
MOLREP
N
Replicase polyprotein 1ab (E.C.3.4.19.12,3.4.22.69,3.4.22.-,2.7.7.48,3.6.4.12,3.6.4.13,2.1.1.-,3.1.13.-,3.1.-.-)
Structure of SARS coronavirus main protease in complex with the alpha-ketoamide (S)-N-benzyl-3-((S)-2-cinnamamido-3-cyclopropylpropanamido)-2-oxo-4-((S)-2-oxopyrrolidin-3-yl)butanamide (Cinnamoyl-cyclopropylalanine-GlnLactam-CO-CO-NH-benzyl)
1
N
N
2
N
N
3
N
N
A
SER
10
A
SER
10
HELX_P
A
GLY
15
A
GLY
15
1
AA1
6
A
HIS
41
A
HIS
41
HELX_P
A
CYS
44
A
CYS
44
5
AA2
4
A
ALA
46
A
ALA
46
HELX_P
A
LEU
50
A
LEU
50
5
AA3
5
A
ASN
53
A
ASN
53
HELX_P
A
ARG
60
A
ARG
60
1
AA4
8
A
SER
62
A
SER
62
HELX_P
A
PHE
66
A
PHE
66
5
AA5
5
A
ILE
200
A
ILE
200
HELX_P
A
ASN
214
A
ASN
214
1
AA6
15
A
THR
226
A
THR
226
HELX_P
A
TYR
237
A
TYR
237
1
AA7
12
A
THR
243
A
THR
243
HELX_P
A
LEU
250
A
LEU
250
1
AA8
8
A
LEU
250
A
LEU
250
HELX_P
A
GLY
258
A
GLY
258
1
AA9
9
A
ALA
260
A
ALA
260
HELX_P
A
GLY
275
A
GLY
275
1
AB1
16
A
THR
292
A
THR
292
HELX_P
A
CYS
300
A
CYS
300
1
AB2
9
covale
1.839
none
A
CYS
145
A
SG
CYS
145
1_555
A
8O5
401
B
C57
8O5
1_555
HYDROLASE
Viral protease, coronavirus, alpha-ketoamide, inhibitor, Hydrolase
R1AB_CVHSA
UNP
1
3241
P0C6X7
SGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDTVYCPRHVICTAEDMLNPNYEDLLIRKSNHSFLVQAGNVQLRVIGH
SMQNCLLRLKVDTSNPKTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNHTIKGSFLNGSCGSVGFNIDYDCVSFC
YMHHMELPTGVHAGTDLEGKFYGPFVDRQTAQAAGTDTTITLNVLAWLYAAVINGDRWFLNRFTTTLNDFNLVAMKYNYE
PLTQDHVDILGPLSAQTGIAVLDMCAALKELLQNGMNGRTILGSTILEDEFTPFDVVRQCSGVTFQ
3241
3546
5N5O
1
306
P0C6X7
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
LEU
67
A
LEU
67
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 8O5 A 401
A
8O5
401
Software
15
A
THR
26
A
THR
26
15
1_555
A
HIS
41
A
HIS
41
15
1_555
A
PHE
140
A
PHE
140
15
1_555
A
ASN
142
A
ASN
142
15
1_555
A
GLY
143
A
GLY
143
15
1_555
A
SER
144
A
SER
144
15
1_555
A
CYS
145
A
CYS
145
15
1_555
A
HIS
163
A
HIS
163
15
1_555
A
HIS
164
A
HIS
164
15
1_555
A
MET
165
A
MET
165
15
1_555
A
GLU
166
A
GLU
166
15
1_555
A
GLN
189
A
GLN
189
15
1_555
A
HOH
575
C
HOH
15
1_555
A
HOH
601
C
HOH
15
1_555
A
HOH
621
C
HOH
15
1_555
5
C 1 2 1