0.010530
0.006080
0.000000
0.000000
0.012159
0.000000
0.000000
0.000000
0.012225
0.00000
0.00000
0.00000
Lemke, C.T.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.000
90.000
120.000
94.965
94.965
81.800
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
C40 H50 N6 O9 S
790.925
N-[(cyclopentyloxy)carbonyl]-3-methyl-L-valyl-(4R)-N-[(1R,2S)-1-carboxy-2-ethenylcyclopropyl]-4-[(7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-L-prolinamide
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
Na 1
22.990
SODIUM ION
non-polymer
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
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
286
11434
11443
10.1074/jbc.M110.211417
21270126
Combined X-ray, NMR, and kinetic analyses reveal uncommon binding characteristics of the hepatitis C virus NS3-NS4A protease inhibitor BI 201335.
2011
100
1
IMAGE PLATE
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU FR-E SUPERBRIGHT
19663.635
HCV serine protease NS3
3.4.21.98
2
man
polymer
1815.277
HCV non-structural protein 4A
NS3 interacting peptide
2
syn
polymer
22.990
SODIUM ION
2
syn
non-polymer
790.925
N-[(cyclopentyloxy)carbonyl]-3-methyl-L-valyl-(4R)-N-[(1R,2S)-1-carboxy-2-ethenylcyclopropyl]-4-[(7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-L-prolinamide
2
syn
non-polymer
18.015
water
66
nat
water
no
no
APITAYSQQTRGLLGCIITSLTGRDKNQVDGEVQVLSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQ
DLVGWPAPPGARSMTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHVVGIFRAAVCT
RGVAKAVDFIPVESMETTMRASKKKK
APITAYSQQTRGLLGCIITSLTGRDKNQVDGEVQVLSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQ
DLVGWPAPPGARSMTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPVSYLKGSSGGPLLCPSGHVVGIFRAAVCT
RGVAKAVDFIPVESMETTMRASKKKK
A,B
polypeptide(L)
no
no
KKGSVVIVGRIILSGRK
KKGSVVIVGRIILSGRK
C,D
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
HCV
isolate Japanese
sample
POLG_HCVJA
11116
Hepatitis C virus
562
Escherichia coli
1
2.48
50.38
VAPOR DIFFUSION, HANGING DROP
6.0
3M NaCl, 0.1M Na Citrate, 2.5% T-butanol, 20mM OBG, 5mM DTT, 3mM sodium azide, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
291
pdbx_unobs_or_zero_occ_atoms
software
repository
Initial release
Version format compliance
Other
Advisory
Refinement description
1
0
2011-01-26
1
1
2011-07-13
1
2
2012-12-12
1
3
2017-11-08
RCSB
Y
RCSB
2010-10-14
REL
REL
NA
SODIUM ION
L5T
N-[(cyclopentyloxy)carbonyl]-3-methyl-L-valyl-(4R)-N-[(1R,2S)-1-carboxy-2-ethenylcyclopropyl]-4-[(7-methoxy-2-{2-[(2-methylpropanoyl)amino]-1,3-thiazol-4-yl}quinolin-4-yl)oxy]-L-prolinamide
HOH
water
THESE ARE NATURAL VARIANTS ACCORDING TO UNIPROT.
Enzyme inhibitor
N-[(CYCLOPENTYLOXY)CARBONYL]-3-METHYL-L-VALYL-(4R)-N-[(1R,2S)-1-CARBOXY-2-ETHENYLCYCLOPROPYL]-4-[(7-METHOXY-2-{2-[(2-METHYLPROPANOYL)AMINO]-1,3-THIAZOL-4-YL}QUINOLIN-4-YL)OXY]-L-PROLINAMIDE
Peptide-like
NA
1
3
NA
NA
187
A
L5T
1
4
L5T
L5T
188
A
NA
2
3
NA
NA
187
B
L5T
2
4
L5T
L5T
188
B
HOH
1
5
HOH
HOH
189
A
HOH
5
5
HOH
HOH
190
A
HOH
9
5
HOH
HOH
191
A
HOH
10
5
HOH
HOH
192
A
HOH
15
5
HOH
HOH
193
A
HOH
17
5
HOH
HOH
194
A
HOH
18
5
HOH
HOH
195
A
HOH
22
5
HOH
HOH
196
A
HOH
24
5
HOH
HOH
197
A
HOH
26
5
HOH
HOH
198
A
HOH
27
5
HOH
HOH
199
A
HOH
28
5
HOH
HOH
200
A
HOH
29
5
HOH
HOH
201
A
HOH
30
5
HOH
HOH
202
A
HOH
31
5
HOH
HOH
203
A
HOH
33
5
HOH
HOH
204
A
HOH
37
5
HOH
HOH
205
A
HOH
39
5
HOH
HOH
206
A
HOH
40
5
HOH
HOH
207
A
HOH
41
5
HOH
HOH
208
A
HOH
55
5
HOH
HOH
209
A
HOH
57
5
HOH
HOH
210
A
HOH
59
5
HOH
HOH
211
A
HOH
60
5
HOH
HOH
212
A
HOH
61
5
HOH
HOH
213
A
HOH
62
5
HOH
HOH
214
A
HOH
63
5
HOH
HOH
215
A
HOH
64
5
HOH
HOH
216
A
HOH
65
5
HOH
HOH
217
A
HOH
66
5
HOH
HOH
218
A
HOH
2
5
HOH
HOH
189
B
HOH
3
5
HOH
HOH
190
B
HOH
4
5
HOH
HOH
191
B
HOH
6
5
HOH
HOH
192
B
HOH
7
5
HOH
HOH
193
B
HOH
8
5
HOH
HOH
194
B
HOH
11
5
HOH
HOH
195
B
HOH
12
5
HOH
HOH
196
B
HOH
13
5
HOH
HOH
197
B
HOH
14
5
HOH
HOH
198
B
HOH
16
5
HOH
HOH
199
B
HOH
19
5
HOH
HOH
200
B
HOH
20
5
HOH
HOH
201
B
HOH
21
5
HOH
HOH
202
B
HOH
23
5
HOH
HOH
203
B
HOH
25
5
HOH
HOH
204
B
HOH
32
5
HOH
HOH
205
B
HOH
34
5
HOH
HOH
206
B
HOH
35
5
HOH
HOH
207
B
HOH
36
5
HOH
HOH
208
B
HOH
38
5
HOH
HOH
209
B
HOH
42
5
HOH
HOH
210
B
HOH
43
5
HOH
HOH
211
B
HOH
44
5
HOH
HOH
212
B
HOH
45
5
HOH
HOH
213
B
HOH
46
5
HOH
HOH
214
B
HOH
47
5
HOH
HOH
215
B
HOH
48
5
HOH
HOH
216
B
HOH
49
5
HOH
HOH
217
B
HOH
50
5
HOH
HOH
218
B
HOH
52
5
HOH
HOH
219
B
HOH
53
5
HOH
HOH
220
B
HOH
54
5
HOH
HOH
221
B
HOH
56
5
HOH
HOH
222
B
HOH
58
5
HOH
HOH
223
B
HOH
51
5
HOH
HOH
51
C
ALA
1
n
1
ALA
1
A
PRO
2
n
2
PRO
2
A
ILE
3
n
3
ILE
3
A
THR
4
n
4
THR
4
A
ALA
5
n
5
ALA
5
A
TYR
6
n
6
TYR
6
A
SER
7
n
7
SER
7
A
GLN
8
n
8
GLN
8
A
GLN
9
n
9
GLN
9
A
THR
10
n
10
THR
10
A
ARG
11
n
11
ARG
11
A
GLY
12
n
12
GLY
12
A
LEU
13
n
13
LEU
13
A
LEU
14
n
14
LEU
14
A
GLY
15
n
15
GLY
15
A
CYS
16
n
16
CYS
16
A
ILE
17
n
17
ILE
17
A
ILE
18
n
18
ILE
18
A
THR
19
n
19
THR
19
A
SER
20
n
20
SER
20
A
LEU
21
n
21
LEU
21
A
THR
22
n
22
THR
22
A
GLY
23
n
23
GLY
23
A
ARG
24
n
24
ARG
24
A
ASP
25
n
25
ASP
25
A
LYS
26
n
26
LYS
26
A
ASN
27
n
27
ASN
27
A
GLN
28
n
28
GLN
28
A
VAL
29
n
29
VAL
29
A
ASP
30
n
30
ASP
30
A
GLY
31
n
31
GLY
31
A
GLU
32
n
32
GLU
32
A
VAL
33
n
33
VAL
33
A
GLN
34
n
34
GLN
34
A
VAL
35
n
35
VAL
35
A
LEU
36
n
36
LEU
36
A
SER
37
n
37
SER
37
A
THR
38
n
38
THR
38
A
ALA
39
n
39
ALA
39
A
THR
40
n
40
THR
40
A
GLN
41
n
41
GLN
41
A
SER
42
n
42
SER
42
A
PHE
43
n
43
PHE
43
A
LEU
44
n
44
LEU
44
A
ALA
45
n
45
ALA
45
A
THR
46
n
46
THR
46
A
CYS
47
n
47
CYS
47
A
VAL
48
n
48
VAL
48
A
ASN
49
n
49
ASN
49
A
GLY
50
n
50
GLY
50
A
VAL
51
n
51
VAL
51
A
CYS
52
n
52
CYS
52
A
TRP
53
n
53
TRP
53
A
THR
54
n
54
THR
54
A
VAL
55
n
55
VAL
55
A
TYR
56
n
56
TYR
56
A
HIS
57
n
57
HIS
57
A
GLY
58
n
58
GLY
58
A
ALA
59
n
59
ALA
59
A
GLY
60
n
60
GLY
60
A
SER
61
n
61
SER
61
A
LYS
62
n
62
LYS
62
A
THR
63
n
63
THR
63
A
LEU
64
n
64
LEU
64
A
ALA
65
n
65
ALA
65
A
GLY
66
n
66
GLY
66
A
PRO
67
n
67
PRO
67
A
LYS
68
n
68
LYS
68
A
GLY
69
n
69
GLY
69
A
PRO
70
n
70
PRO
70
A
ILE
71
n
71
ILE
71
A
THR
72
n
72
THR
72
A
GLN
73
n
73
GLN
73
A
MET
74
n
74
MET
74
A
TYR
75
n
75
TYR
75
A
THR
76
n
76
THR
76
A
ASN
77
n
77
ASN
77
A
VAL
78
n
78
VAL
78
A
ASP
79
n
79
ASP
79
A
GLN
80
n
80
GLN
80
A
ASP
81
n
81
ASP
81
A
LEU
82
n
82
LEU
82
A
VAL
83
n
83
VAL
83
A
GLY
84
n
84
GLY
84
A
TRP
85
n
85
TRP
85
A
PRO
86
n
86
PRO
86
A
ALA
87
n
87
ALA
87
A
PRO
88
n
88
PRO
88
A
PRO
89
n
89
PRO
89
A
GLY
90
n
90
GLY
90
A
ALA
91
n
91
ALA
91
A
ARG
92
n
92
ARG
92
A
SER
93
n
93
SER
93
A
MET
94
n
94
MET
94
A
THR
95
n
95
THR
95
A
PRO
96
n
96
PRO
96
A
CYS
97
n
97
CYS
97
A
THR
98
n
98
THR
98
A
CYS
99
n
99
CYS
99
A
GLY
100
n
100
GLY
100
A
SER
101
n
101
SER
101
A
SER
102
n
102
SER
102
A
ASP
103
n
103
ASP
103
A
LEU
104
n
104
LEU
104
A
TYR
105
n
105
TYR
105
A
LEU
106
n
106
LEU
106
A
VAL
107
n
107
VAL
107
A
THR
108
n
108
THR
108
A
ARG
109
n
109
ARG
109
A
HIS
110
n
110
HIS
110
A
ALA
111
n
111
ALA
111
A
ASP
112
n
112
ASP
112
A
VAL
113
n
113
VAL
113
A
ILE
114
n
114
ILE
114
A
PRO
115
n
115
PRO
115
A
VAL
116
n
116
VAL
116
A
ARG
117
n
117
ARG
117
A
ARG
118
n
118
ARG
118
A
ARG
119
n
119
ARG
119
A
GLY
120
n
120
GLY
120
A
ASP
121
n
121
ASP
121
A
SER
122
n
122
SER
122
A
ARG
123
n
123
ARG
123
A
GLY
124
n
124
GLY
124
A
SER
125
n
125
SER
125
A
LEU
126
n
126
LEU
126
A
LEU
127
n
127
LEU
127
A
SER
128
n
128
SER
128
A
PRO
129
n
129
PRO
129
A
ARG
130
n
130
ARG
130
A
PRO
131
n
131
PRO
131
A
VAL
132
n
132
VAL
132
A
SER
133
n
133
SER
133
A
TYR
134
n
134
TYR
134
A
LEU
135
n
135
LEU
135
A
LYS
136
n
136
LYS
136
A
GLY
137
n
137
GLY
137
A
SER
138
n
138
SER
138
A
SER
139
n
139
SER
139
A
GLY
140
n
140
GLY
140
A
GLY
141
n
141
GLY
141
A
PRO
142
n
142
PRO
142
A
LEU
143
n
143
LEU
143
A
LEU
144
n
144
LEU
144
A
CYS
145
n
145
CYS
145
A
PRO
146
n
146
PRO
146
A
SER
147
n
147
SER
147
A
GLY
148
n
148
GLY
148
A
HIS
149
n
149
HIS
149
A
VAL
150
n
150
VAL
150
A
VAL
151
n
151
VAL
151
A
GLY
152
n
152
GLY
152
A
ILE
153
n
153
ILE
153
A
PHE
154
n
154
PHE
154
A
ARG
155
n
155
ARG
155
A
ALA
156
n
156
ALA
156
A
ALA
157
n
157
ALA
157
A
VAL
158
n
158
VAL
158
A
CYS
159
n
159
CYS
159
A
THR
160
n
160
THR
160
A
ARG
161
n
161
ARG
161
A
GLY
162
n
162
GLY
162
A
VAL
163
n
163
VAL
163
A
ALA
164
n
164
ALA
164
A
LYS
165
n
165
LYS
165
A
ALA
166
n
166
ALA
166
A
VAL
167
n
167
VAL
167
A
ASP
168
n
168
ASP
168
A
PHE
169
n
169
PHE
169
A
ILE
170
n
170
ILE
170
A
PRO
171
n
171
PRO
171
A
VAL
172
n
172
VAL
172
A
GLU
173
n
173
GLU
173
A
SER
174
n
174
SER
174
A
MET
175
n
175
MET
175
A
GLU
176
n
176
GLU
176
A
THR
177
n
177
THR
177
A
THR
178
n
178
THR
178
A
MET
179
n
179
MET
179
A
ALA
180
n
180
ARG
180
A
ALA
181
n
181
ALA
181
A
ALA
182
n
182
SER
182
A
n
183
183
A
n
184
184
A
n
185
185
A
n
186
186
A
ALA
1
n
1
ALA
1
B
PRO
2
n
2
PRO
2
B
ILE
3
n
3
ILE
3
B
THR
4
n
4
THR
4
B
ALA
5
n
5
ALA
5
B
TYR
6
n
6
TYR
6
B
SER
7
n
7
SER
7
B
GLN
8
n
8
GLN
8
B
GLN
9
n
9
GLN
9
B
THR
10
n
10
THR
10
B
ARG
11
n
11
ARG
11
B
GLY
12
n
12
GLY
12
B
LEU
13
n
13
LEU
13
B
LEU
14
n
14
LEU
14
B
GLY
15
n
15
GLY
15
B
CYS
16
n
16
CYS
16
B
ILE
17
n
17
ILE
17
B
ILE
18
n
18
ILE
18
B
THR
19
n
19
THR
19
B
SER
20
n
20
SER
20
B
LEU
21
n
21
LEU
21
B
THR
22
n
22
THR
22
B
GLY
23
n
23
GLY
23
B
ARG
24
n
24
ARG
24
B
ASP
25
n
25
ASP
25
B
LYS
26
n
26
LYS
26
B
ASN
27
n
27
ASN
27
B
GLN
28
n
28
GLN
28
B
VAL
29
n
29
VAL
29
B
ASP
30
n
30
ASP
30
B
GLY
31
n
31
GLY
31
B
GLU
32
n
32
GLU
32
B
VAL
33
n
33
VAL
33
B
GLN
34
n
34
GLN
34
B
VAL
35
n
35
VAL
35
B
LEU
36
n
36
LEU
36
B
SER
37
n
37
SER
37
B
THR
38
n
38
THR
38
B
ALA
39
n
39
ALA
39
B
THR
40
n
40
THR
40
B
GLN
41
n
41
GLN
41
B
SER
42
n
42
SER
42
B
PHE
43
n
43
PHE
43
B
LEU
44
n
44
LEU
44
B
ALA
45
n
45
ALA
45
B
THR
46
n
46
THR
46
B
CYS
47
n
47
CYS
47
B
VAL
48
n
48
VAL
48
B
ASN
49
n
49
ASN
49
B
GLY
50
n
50
GLY
50
B
VAL
51
n
51
VAL
51
B
CYS
52
n
52
CYS
52
B
TRP
53
n
53
TRP
53
B
THR
54
n
54
THR
54
B
VAL
55
n
55
VAL
55
B
TYR
56
n
56
TYR
56
B
HIS
57
n
57
HIS
57
B
GLY
58
n
58
GLY
58
B
ALA
59
n
59
ALA
59
B
GLY
60
n
60
GLY
60
B
SER
61
n
61
SER
61
B
LYS
62
n
62
LYS
62
B
THR
63
n
63
THR
63
B
LEU
64
n
64
LEU
64
B
ALA
65
n
65
ALA
65
B
GLY
66
n
66
GLY
66
B
PRO
67
n
67
PRO
67
B
LYS
68
n
68
LYS
68
B
GLY
69
n
69
GLY
69
B
PRO
70
n
70
PRO
70
B
ILE
71
n
71
ILE
71
B
THR
72
n
72
THR
72
B
GLN
73
n
73
GLN
73
B
MET
74
n
74
MET
74
B
TYR
75
n
75
TYR
75
B
THR
76
n
76
THR
76
B
ASN
77
n
77
ASN
77
B
VAL
78
n
78
VAL
78
B
ASP
79
n
79
ASP
79
B
GLN
80
n
80
GLN
80
B
ASP
81
n
81
ASP
81
B
LEU
82
n
82
LEU
82
B
VAL
83
n
83
VAL
83
B
GLY
84
n
84
GLY
84
B
TRP
85
n
85
TRP
85
B
PRO
86
n
86
PRO
86
B
ALA
87
n
87
ALA
87
B
PRO
88
n
88
PRO
88
B
PRO
89
n
89
PRO
89
B
GLY
90
n
90
GLY
90
B
ALA
91
n
91
ALA
91
B
ARG
92
n
92
ARG
92
B
SER
93
n
93
SER
93
B
MET
94
n
94
MET
94
B
THR
95
n
95
THR
95
B
PRO
96
n
96
PRO
96
B
CYS
97
n
97
CYS
97
B
THR
98
n
98
THR
98
B
CYS
99
n
99
CYS
99
B
GLY
100
n
100
GLY
100
B
SER
101
n
101
SER
101
B
SER
102
n
102
SER
102
B
ASP
103
n
103
ASP
103
B
LEU
104
n
104
LEU
104
B
TYR
105
n
105
TYR
105
B
LEU
106
n
106
LEU
106
B
VAL
107
n
107
VAL
107
B
THR
108
n
108
THR
108
B
ARG
109
n
109
ARG
109
B
HIS
110
n
110
HIS
110
B
ALA
111
n
111
ALA
111
B
ASP
112
n
112
ASP
112
B
VAL
113
n
113
VAL
113
B
ILE
114
n
114
ILE
114
B
PRO
115
n
115
PRO
115
B
VAL
116
n
116
VAL
116
B
ARG
117
n
117
ARG
117
B
ARG
118
n
118
ARG
118
B
ARG
119
n
119
ARG
119
B
GLY
120
n
120
GLY
120
B
ASP
121
n
121
ASP
121
B
SER
122
n
122
SER
122
B
ARG
123
n
123
ARG
123
B
GLY
124
n
124
GLY
124
B
SER
125
n
125
SER
125
B
LEU
126
n
126
LEU
126
B
LEU
127
n
127
LEU
127
B
SER
128
n
128
SER
128
B
PRO
129
n
129
PRO
129
B
ARG
130
n
130
ARG
130
B
PRO
131
n
131
PRO
131
B
VAL
132
n
132
VAL
132
B
SER
133
n
133
SER
133
B
TYR
134
n
134
TYR
134
B
LEU
135
n
135
LEU
135
B
LYS
136
n
136
LYS
136
B
GLY
137
n
137
GLY
137
B
SER
138
n
138
SER
138
B
SER
139
n
139
SER
139
B
GLY
140
n
140
GLY
140
B
GLY
141
n
141
GLY
141
B
PRO
142
n
142
PRO
142
B
LEU
143
n
143
LEU
143
B
LEU
144
n
144
LEU
144
B
CYS
145
n
145
CYS
145
B
PRO
146
n
146
PRO
146
B
SER
147
n
147
SER
147
B
GLY
148
n
148
GLY
148
B
HIS
149
n
149
HIS
149
B
VAL
150
n
150
VAL
150
B
VAL
151
n
151
VAL
151
B
GLY
152
n
152
GLY
152
B
ILE
153
n
153
ILE
153
B
PHE
154
n
154
PHE
154
B
ARG
155
n
155
ARG
155
B
ALA
156
n
156
ALA
156
B
ALA
157
n
157
ALA
157
B
VAL
158
n
158
VAL
158
B
CYS
159
n
159
CYS
159
B
THR
160
n
160
THR
160
B
ARG
161
n
161
ARG
161
B
GLY
162
n
162
GLY
162
B
VAL
163
n
163
VAL
163
B
ALA
164
n
164
ALA
164
B
LYS
165
n
165
LYS
165
B
ALA
166
n
166
ALA
166
B
VAL
167
n
167
VAL
167
B
ASP
168
n
168
ASP
168
B
PHE
169
n
169
PHE
169
B
ILE
170
n
170
ILE
170
B
PRO
171
n
171
PRO
171
B
VAL
172
n
172
VAL
172
B
GLU
173
n
173
GLU
173
B
SER
174
n
174
SER
174
B
MET
175
n
175
MET
175
B
GLU
176
n
176
GLU
176
B
THR
177
n
177
THR
177
B
THR
178
n
178
THR
178
B
MET
179
n
179
MET
179
B
ALA
180
n
180
ARG
180
B
ALA
181
n
181
ALA
181
B
ALA
182
n
182
SER
182
B
n
183
183
B
n
184
184
B
n
185
185
B
n
186
186
B
n
1
219
C
GLY
220
n
2
LYS
220
C
GLY
221
n
3
GLY
221
C
SER
222
n
4
SER
222
C
VAL
223
n
5
VAL
223
C
VAL
224
n
6
VAL
224
C
ILE
225
n
7
ILE
225
C
VAL
226
n
8
VAL
226
C
GLY
227
n
9
GLY
227
C
ARG
228
n
10
ARG
228
C
ILE
229
n
11
ILE
229
C
ILE
230
n
12
ILE
230
C
LEU
231
n
13
LEU
231
C
SER
232
n
14
SER
232
C
n
15
233
C
n
16
234
C
n
17
235
C
n
1
219
D
GLY
220
n
2
LYS
220
D
GLY
221
n
3
GLY
221
D
SER
222
n
4
SER
222
D
VAL
223
n
5
VAL
223
D
VAL
224
n
6
VAL
224
D
ILE
225
n
7
ILE
225
D
VAL
226
n
8
VAL
226
D
GLY
227
n
9
GLY
227
D
ARG
228
n
10
ARG
228
D
ILE
229
n
11
ILE
229
D
ILE
230
n
12
ILE
230
D
LEU
231
n
13
LEU
231
D
SER
232
n
14
SER
232
D
n
15
233
D
n
16
234
D
n
17
235
D
author_and_software_defined_assembly
PISA
2
dimeric
author_and_software_defined_assembly
PISA
2
dimeric
2500
-21
8880
2590
-21
8920
A
ALA
5
A
O
ALA
5
1_555
A
NA
187
E
NA
NA
1_555
A
ALA
111
A
O
ALA
111
1_555
99.2
A
ALA
5
A
O
ALA
5
1_555
A
NA
187
E
NA
NA
1_555
A
HOH
197
I
O
HOH
1_555
96.7
A
ALA
111
A
O
ALA
111
1_555
A
NA
187
E
NA
NA
1_555
A
HOH
197
I
O
HOH
1_555
102.0
A
ALA
5
A
O
ALA
5
1_555
A
NA
187
E
NA
NA
1_555
A
HOH
196
I
O
HOH
1_555
84.8
A
ALA
111
A
O
ALA
111
1_555
A
NA
187
E
NA
NA
1_555
A
HOH
196
I
O
HOH
1_555
168.3
A
HOH
197
I
O
HOH
1_555
A
NA
187
E
NA
NA
1_555
A
HOH
196
I
O
HOH
1_555
88.3
B
ALA
111
B
O
ALA
111
1_555
B
NA
187
G
NA
NA
1_555
B
ALA
5
B
O
ALA
5
1_555
88.9
B
ALA
111
B
O
ALA
111
1_555
B
NA
187
G
NA
NA
1_555
B
HOH
207
J
O
HOH
1_555
96.4
B
ALA
5
B
O
ALA
5
1_555
B
NA
187
G
NA
NA
1_555
B
HOH
207
J
O
HOH
1_555
158.7
B
ALA
111
B
O
ALA
111
1_555
B
NA
187
G
NA
NA
1_555
B
HOH
193
J
O
HOH
1_555
100.0
B
ALA
5
B
O
ALA
5
1_555
B
NA
187
G
NA
NA
1_555
B
HOH
193
J
O
HOH
1_555
83.2
B
HOH
207
J
O
HOH
1_555
B
NA
187
G
NA
NA
1_555
B
HOH
193
J
O
HOH
1_555
75.5
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
A
N
TYR
6
A
N
TYR
6
C
O
ILE
230
C
O
ILE
12
C
O
GLY
227
C
O
GLY
9
A
N
VAL
35
A
N
VAL
35
A
N
LEU
36
A
N
LEU
36
A
O
PHE
43
A
O
PHE
43
A
N
THR
46
A
N
THR
46
A
O
TRP
53
A
O
TRP
53
A
N
CYS
52
A
N
CYS
52
A
O
TRP
85
A
O
TRP
85
A
O
LEU
82
A
O
LEU
82
A
N
ASN
77
A
N
ASN
77
A
N
LEU
104
A
N
LEU
104
A
O
VAL
116
A
O
VAL
116
A
N
ARG
117
A
N
ARG
117
A
O
SER
125
A
O
SER
125
A
N
ARG
130
A
N
ARG
130
A
O
ALA
164
A
O
ALA
164
A
O
ASP
168
A
O
ASP
168
A
N
ALA
156
A
N
ALA
156
A
O
VAL
151
A
O
VAL
151
A
N
LEU
143
A
N
LEU
143
A
O
LEU
144
A
O
LEU
144
A
N
TYR
105
A
N
TYR
105
B
N
TYR
6
B
N
TYR
6
D
O
ILE
230
D
O
ILE
12
D
O
GLY
227
D
O
GLY
9
B
N
VAL
35
B
N
VAL
35
B
N
LEU
36
B
N
LEU
36
B
O
PHE
43
B
O
PHE
43
B
N
THR
46
B
N
THR
46
B
O
TRP
53
B
O
TRP
53
B
N
CYS
52
B
N
CYS
52
B
O
TRP
85
B
O
TRP
85
B
O
LEU
82
B
O
LEU
82
B
N
ASN
77
B
N
ASN
77
B
N
LEU
104
B
N
LEU
104
B
O
VAL
116
B
O
VAL
116
B
N
ARG
117
B
N
ARG
117
B
O
SER
125
B
O
SER
125
B
N
GLY
124
B
N
GLY
124
B
O
VAL
167
B
O
VAL
167
B
O
ASP
168
B
O
ASP
168
B
N
ALA
156
B
N
ALA
156
B
O
GLY
152
B
O
GLY
152
B
N
LEU
143
B
N
LEU
143
B
O
LEU
144
B
O
LEU
144
B
N
TYR
105
B
N
TYR
105
1
A
CG
ARG
180
A
CG
ARG
180
1
Y
1
A
CD
ARG
180
A
CD
ARG
180
1
Y
1
A
NE
ARG
180
A
NE
ARG
180
1
Y
1
A
CZ
ARG
180
A
CZ
ARG
180
1
Y
1
A
NH1
ARG
180
A
NH1
ARG
180
1
Y
1
A
NH2
ARG
180
A
NH2
ARG
180
1
Y
1
A
OG
SER
182
A
OG
SER
182
1
Y
1
B
CG
ARG
180
B
CG
ARG
180
1
Y
1
B
CD
ARG
180
B
CD
ARG
180
1
Y
1
B
NE
ARG
180
B
NE
ARG
180
1
Y
1
B
CZ
ARG
180
B
CZ
ARG
180
1
Y
1
B
NH1
ARG
180
B
NH1
ARG
180
1
Y
1
B
NH2
ARG
180
B
NH2
ARG
180
1
Y
1
B
OG
SER
182
B
OG
SER
182
1
Y
1
C
CB
LYS
220
C
CB
LYS
2
1
Y
1
C
CG
LYS
220
C
CG
LYS
2
1
Y
1
C
CD
LYS
220
C
CD
LYS
2
1
Y
1
C
CE
LYS
220
C
CE
LYS
2
1
Y
1
C
NZ
LYS
220
C
NZ
LYS
2
1
Y
1
D
CB
LYS
220
D
CB
LYS
2
1
Y
1
D
CG
LYS
220
D
CG
LYS
2
1
Y
1
D
CD
LYS
220
D
CD
LYS
2
1
Y
1
D
CE
LYS
220
D
CE
LYS
2
1
Y
1
D
NZ
LYS
220
D
NZ
LYS
2
1
Y
1
A
LYS
183
A
LYS
183
1
Y
1
A
LYS
184
A
LYS
184
1
Y
1
A
LYS
185
A
LYS
185
1
Y
1
A
LYS
186
A
LYS
186
1
Y
1
B
LYS
183
B
LYS
183
1
Y
1
B
LYS
184
B
LYS
184
1
Y
1
B
LYS
185
B
LYS
185
1
Y
1
B
LYS
186
B
LYS
186
1
Y
1
C
LYS
219
C
LYS
1
1
Y
1
C
GLY
233
C
GLY
15
1
Y
1
C
ARG
234
C
ARG
16
1
Y
1
C
LYS
235
C
LYS
17
1
Y
1
D
LYS
219
D
LYS
1
1
Y
1
D
GLY
233
D
GLY
15
1
Y
1
D
ARG
234
D
ARG
16
1
Y
1
D
LYS
235
D
LYS
17
1
Y
1
A
THR
38
-111.96
-167.05
1
A
ALA
181
-81.34
34.85
1
B
THR
38
-111.60
-157.58
1
B
VAL
172
-59.60
-3.62
1
B
ARG
180
-79.99
43.38
1
B
ALA
181
-147.81
-13.19
protein_rep.param
protein.top
dna-rna_rep.param
dna-rna.top
water_rep.param
water.top
ion.param
ion.top
BI00201335_mod.par
BI00201335_mod.top
97.180
48.4143
26.310
0.1140
0.0360
0.0000
0.1140
0.0000
-0.2270
0.2553
0.2077
2.3000
40.0000
872
17940
4.7000
95.9000
1.000
0.000
Random
1
0.000
MOLECULAR REPLACEMENT
2.3000
40.0000
66
3014
114
0
2834
0.009
0.982
1.609
1.500
2.311
2.000
2.740
2.000
3.277
2.500
2.300
40.000
3P8O
18452
0.048
1.003
1
23.200
10.600
98.600
0.383
2.300
2.380
1655
0.991
1
7.700
88.600
0.320
2.380
2.480
1812
1.000
1
9.000
97.800
0.289
2.480
2.590
1859
0.983
1
10.200
99.900
0.193
2.590
2.730
1869
1.018
1
10.900
100.000
0.124
2.730
2.900
1854
0.998
1
11.200
100.000
0.084
2.900
3.120
1857
0.974
1
11.300
100.000
0.059
3.120
3.440
1874
0.970
1
11.300
100.000
0.042
3.440
3.930
1885
0.986
1
11.300
100.000
0.032
3.930
4.950
1870
1.019
1
11.200
99.900
0.031
4.950
40.000
1917
1.082
1
11.100
99.600
data reduction
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
DENZO
package
data scaling
Zbyszek Otwinowski
hkl@hkl-xray.com
http://www.hkl-xray.com/
SCALEPACK
package
refinement
Axel T. Brunger
axel.brunger@yale.edu
Fortran_77
http://cns-online.org/
CNS
package
data extraction
PDB
deposit@deposit.rcsb.org
June 10, 2010
C++
http://sw-tools.pdb.org/apps/PDB_EXTRACT/
PDB_EXTRACT
package
3.10
data collection
MAR345dtb
phasing
CNS
HCV serine protease NS3 (E.C.3.4.21.98), HCV non-structural protein 4A
Crystal structure of HCV NS3/NS4A protease complexed with des-bromine analogue of BI 201335
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
4
N
N
3
N
N
4
N
N
5
N
N
5
N
N
5
N
N
A
GLY
12
A
GLY
12
HELX_P
A
GLY
23
A
GLY
23
1
1
12
A
VAL
55
A
VAL
55
HELX_P
A
GLY
60
A
GLY
60
1
2
6
A
VAL
132
A
VAL
132
HELX_P
A
LYS
136
A
LYS
136
1
3
5
A
GLU
173
A
GLU
173
HELX_P
A
ALA
181
A
ALA
181
1
4
9
B
GLY
12
B
GLY
12
HELX_P
B
GLY
23
B
GLY
23
1
5
12
B
TYR
56
B
TYR
56
HELX_P
B
GLY
60
B
GLY
60
1
6
5
B
VAL
132
B
VAL
132
HELX_P
B
LYS
136
B
LYS
136
1
7
5
B
VAL
172
B
VAL
172
HELX_P
B
ARG
180
B
ARG
180
1
8
9
disulf
2.036
A
CYS
97
A
SG
CYS
97
1_555
A
CYS
145
A
SG
CYS
145
1_555
disulf
2.039
B
CYS
97
B
SG
CYS
97
1_555
B
CYS
145
B
SG
CYS
145
1_555
metalc
1.984
A
ALA
5
A
O
ALA
5
1_555
A
NA
187
E
NA
NA
1_555
metalc
2.249
B
ALA
111
B
O
ALA
111
1_555
B
NA
187
G
NA
NA
1_555
metalc
2.302
A
ALA
111
A
O
ALA
111
1_555
A
NA
187
E
NA
NA
1_555
metalc
2.500
B
ALA
5
B
O
ALA
5
1_555
B
NA
187
G
NA
NA
1_555
metalc
2.445
B
NA
187
G
NA
NA
1_555
B
HOH
207
J
O
HOH
1_555
metalc
2.515
A
NA
187
E
NA
NA
1_555
A
HOH
197
I
O
HOH
1_555
metalc
2.629
B
NA
187
G
NA
NA
1_555
B
HOH
193
J
O
HOH
1_555
metalc
2.681
A
NA
187
E
NA
NA
1_555
A
HOH
196
I
O
HOH
1_555
HYDROLASE/HYDROLASE inhibitor
Hepatitis C Virus, NS3, NS4A, halogen bond, serine protease, HYDROLASE-HYDROLASE inhibitor complex
POLG_HCVJA
UNP
1
1027
P26662
APITAYSQQTRGLLGCIITSLTGRDKNQVDGEVQVLSTATQSFLATCVNGVCWTVYHGAGSKTLAGPKGPITQMYTNVDQ
DLVGWPAPPGARSMTPCTCGSSDLYLVTRHADVVPVRRRGDSRGSLLSPRPISYLKGSSGGPLLCPSGHVVGIFRAAVCT
RGVAKAVDFIPVESMETTMR
3P8O
PDB
2
3P8O
1027
1206
3P8O
1
180
P26662
A
1
1
180
1027
1206
3P8O
1
180
P26662
B
1
1
180
219
235
3P8O
219
235
3P8O
C
2
1
17
219
235
3P8O
219
235
3P8O
D
2
1
17
1
VAL
SEE REMARK 999
ILE
114
3P8O
A
P26662
UNP
1140
114
1
ILE
SEE REMARK 999
VAL
132
3P8O
A
P26662
UNP
1158
132
1
EXPRESSION TAG
ALA
181
3P8O
A
P26662
UNP
181
1
EXPRESSION TAG
SER
182
3P8O
A
P26662
UNP
182
1
EXPRESSION TAG
LYS
183
3P8O
A
P26662
UNP
183
1
EXPRESSION TAG
LYS
184
3P8O
A
P26662
UNP
184
1
EXPRESSION TAG
LYS
185
3P8O
A
P26662
UNP
185
1
EXPRESSION TAG
LYS
186
3P8O
A
P26662
UNP
186
2
VAL
SEE REMARK 999
ILE
114
3P8O
B
P26662
UNP
1140
114
2
ILE
SEE REMARK 999
VAL
132
3P8O
B
P26662
UNP
1158
132
2
EXPRESSION TAG
ALA
181
3P8O
B
P26662
UNP
181
2
EXPRESSION TAG
SER
182
3P8O
B
P26662
UNP
182
2
EXPRESSION TAG
LYS
183
3P8O
B
P26662
UNP
183
2
EXPRESSION TAG
LYS
184
3P8O
B
P26662
UNP
184
2
EXPRESSION TAG
LYS
185
3P8O
B
P26662
UNP
185
2
EXPRESSION TAG
LYS
186
3P8O
B
P26662
UNP
186
7
7
7
7
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
A
THR
4
A
THR
4
A
GLN
9
A
GLN
9
C
VAL
224
C
VAL
6
C
SER
232
C
SER
14
A
VAL
33
A
VAL
33
A
SER
37
A
SER
37
A
SER
42
A
SER
42
A
VAL
48
A
VAL
48
A
VAL
51
A
VAL
51
A
THR
54
A
THR
54
A
LEU
82
A
LEU
82
A
PRO
86
A
PRO
86
A
TYR
75
A
TYR
75
A
ASN
77
A
ASN
77
A
ASP
103
A
ASP
103
A
VAL
107
A
VAL
107
A
VAL
113
A
VAL
113
A
ARG
118
A
ARG
118
A
ARG
123
A
ARG
123
A
PRO
131
A
PRO
131
A
VAL
163
A
VAL
163
A
PRO
171
A
PRO
171
A
VAL
150
A
VAL
150
A
THR
160
A
THR
160
A
PRO
142
A
PRO
142
A
LEU
144
A
LEU
144
A
ASP
103
A
ASP
103
A
VAL
107
A
VAL
107
B
ALA
5
B
ALA
5
B
GLN
9
B
GLN
9
D
VAL
224
D
VAL
6
D
LEU
231
D
LEU
13
B
VAL
33
B
VAL
33
B
SER
37
B
SER
37
B
SER
42
B
SER
42
B
VAL
48
B
VAL
48
B
VAL
51
B
VAL
51
B
VAL
55
B
VAL
55
B
LEU
82
B
LEU
82
B
PRO
86
B
PRO
86
B
TYR
75
B
TYR
75
B
ASN
77
B
ASN
77
B
ASP
103
B
ASP
103
B
VAL
107
B
VAL
107
B
VAL
113
B
VAL
113
B
ARG
118
B
ARG
118
B
ARG
123
B
ARG
123
B
PRO
131
B
PRO
131
B
VAL
163
B
VAL
163
B
PRO
171
B
PRO
171
B
VAL
150
B
VAL
150
B
THR
160
B
THR
160
B
PRO
142
B
PRO
142
B
LEU
144
B
LEU
144
B
ASP
103
B
ASP
103
B
VAL
107
B
VAL
107
BINDING SITE FOR RESIDUE NA A 187
Software
4
BINDING SITE FOR RESIDUE L5T A 188
Software
18
BINDING SITE FOR RESIDUE NA B 187
Software
4
BINDING SITE FOR RESIDUE L5T B 188
Software
19
A
ALA
5
A
ALA
5
4
1_555
A
ALA
111
A
ALA
111
4
1_555
A
HOH
196
I
HOH
4
1_555
A
HOH
197
I
HOH
4
1_555
A
TYR
56
A
TYR
56
18
1_555
A
HIS
57
A
HIS
57
18
1_555
A
VAL
78
A
VAL
78
18
1_555
A
ASP
81
A
ASP
81
18
1_555
A
LEU
135
A
LEU
135
18
1_555
A
LYS
136
A
LYS
136
18
1_555
A
GLY
137
A
GLY
137
18
1_555
A
SER
138
A
SER
138
18
1_555
A
SER
139
A
SER
139
18
1_555
A
PHE
154
A
PHE
154
18
1_555
A
ARG
155
A
ARG
155
18
1_555
A
ALA
156
A
ALA
156
18
1_555
A
ALA
157
A
ALA
157
18
1_555
A
VAL
158
A
VAL
158
18
1_555
A
CYS
159
A
CYS
159
18
1_555
A
ASP
168
A
ASP
168
18
1_555
A
HOH
209
I
HOH
18
1_555
A
HOH
216
I
HOH
18
1_555
B
ALA
5
B
ALA
5
4
1_555
B
ALA
111
B
ALA
111
4
1_555
B
HOH
193
J
HOH
4
1_555
B
HOH
207
J
HOH
4
1_555
B
TYR
56
B
TYR
56
19
1_555
B
HIS
57
B
HIS
57
19
1_555
B
VAL
78
B
VAL
78
19
1_555
B
ASP
81
B
ASP
81
19
1_555
B
ARG
123
B
ARG
123
19
1_555
B
VAL
132
B
VAL
132
19
1_555
B
LEU
135
B
LEU
135
19
1_555
B
LYS
136
B
LYS
136
19
1_555
B
GLY
137
B
GLY
137
19
1_555
B
SER
138
B
SER
138
19
1_555
B
SER
139
B
SER
139
19
1_555
B
PHE
154
B
PHE
154
19
1_555
B
ARG
155
B
ARG
155
19
1_555
B
ALA
156
B
ALA
156
19
1_555
B
ALA
157
B
ALA
157
19
1_555
B
CYS
159
B
CYS
159
19
1_555
B
HOH
208
J
HOH
19
1_555
B
HOH
220
J
HOH
19
1_555
B
HOH
222
J
HOH
19
1_555
169
P 61