0.004427
0.002556
0.000000
0.000000
0.005112
0.000000
0.000000
0.000000
0.013208
0.00000
0.00000
0.00000
Perni, R.B.
Wei, Y.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
36
90.00
90.00
120.00
225.870
225.870
75.710
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
C37 H57 N7 O8
727.891
(2S,3AS,7AS)-1-[(2S)-2-{[(2S)-2-CYCLOHEXYL-2-({[(2R)-4-NITRO-2H-PYRROL-2-YL]CARBONYL}AMINO)ACETYL]AMINO}-3,3-DIMETHYLBUTANOYL]-N-{(1S)-1-[(1R)-2-(CYCLOPROPYLAMINO)-1-HYDROXY-2-OXOETHYL]BUTYL}OCTAHYDRO-1H-INDOLE-2-CARBOXAMIDE
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
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
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
UK
Bioorg.Med.Chem.Lett.
BMCLE8
1127
0960-894X
17
3406
3411
10.1016/j.bmcl.2007.03.090
17482818
Inhibitors of hepatitis C virus NS3.4A protease. Effect of P4 capping groups on inhibitory potency and pharmacokinetics.
2007
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
170
1
mirrors
IMAGE PLATE
2001-01-01
RIGAKU RAXIS IV
mirrors
SINGLE WAVELENGTH
M
x-ray
1
1.5418
1.0
1.5418
ROTATING ANODE
RIGAKU RU300
19179.945
NS3
HCV NS3.4A protease domain
2
man
polymer
2077.577
peptide
2
syn
polymer
727.891
(2S,3AS,7AS)-1-[(2S)-2-{[(2S)-2-CYCLOHEXYL-2-({[(2R)-4-NITRO-2H-PYRROL-2-YL]CARBONYL}AMINO)ACETYL]AMINO}-3,3-DIMETHYLBUTANOYL]-N-{(1S)-1-[(1R)-2-(CYCLOPROPYLAMINO)-1-HYDROXY-2-OXOETHYL]BUTYL}OCTAHYDRO-1H-INDOLE-2-CARBOXAMIDE
1
syn
non-polymer
no
no
APITAYAQQTRGLLGCIITSLTGRDKNQVEGEVQIVSTATQTFLATCINGVCWTVYHGAGTRTIASPKGPVIQMYTNVDQ
DLVGWPAPQGSRSLTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPISYLKGSSGGPLLCPAGHAVGLFRAAVCT
RGVAKAVDFIPVENLETTMRS
APITAYAQQTRGLLGCIITSLTGRDKNQVEGEVQIVSTATQTFLATCINGVCWTVYHGAGTRTIASPKGPVIQMYTNVDQ
DLVGWPAPQGSRSLTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPISYLKGSSGGPLLCPAGHAVGLFRAAVCT
RGVAKAVDFIPVENLETTMRS
A,B
polypeptide(L)
no
no
KGSVVIVGRIVLSGKPAIIPA
KGSVVIVGRIVLSGKPAIIPA
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
Hepacivirus
HCV-H strain
Escherichia
Escherichia coli
sample
NS3 protease domain
11103
Hepatitis C virus
469008
Escherichia coli BL21(DE3)
BL21/DE3
plasmid
pBEV10
1
4.37
71.84
VAPOR DIFFUSION, HANGING DROP
6.2
1.6M NaCl, 0.3M KH2PO4, 0.1M MES, 10.0 mM PME, protein concentration 9.3 mg/ml, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
repository
Initial release
Version format compliance
1
0
2008-02-05
1
1
2011-07-13
RCSB
Y
RCSB
2007-03-14
REL
REL
GG4
(2S,3AS,7AS)-1-[(2S)-2-{[(2S)-2-CYCLOHEXYL-2-({[(2R)-4-NITRO-2H-PYRROL-2-YL]CARBONYL}AMINO)ACETYL]AMINO}-3,3-DIMETHYLBUTANOYL]-N-{(1S)-1-[(1R)-2-(CYCLOPROPYLAMINO)-1-HYDROXY-2-OXOETHYL]BUTYL}OCTAHYDRO-1H-INDOLE-2-CARBOXAMIDE
synthetic peptide
sample
GG4
1165
3
GG4
GG4
1208
B
n
1
27
A
n
2
28
A
n
3
29
A
n
4
30
A
n
5
31
A
n
6
32
A
n
7
33
A
n
8
34
A
n
9
35
A
n
10
36
A
n
11
37
A
n
12
38
A
n
13
39
A
n
14
40
A
n
15
41
A
n
16
42
A
n
17
43
A
n
18
44
A
n
19
45
A
n
20
46
A
n
21
47
A
n
22
48
A
n
23
49
A
n
24
50
A
n
25
51
A
n
26
52
A
n
27
53
A
n
28
54
A
VAL
55
n
29
VAL
55
A
GLU
56
n
30
GLU
56
A
GLY
57
n
31
GLY
57
A
GLU
58
n
32
GLU
58
A
VAL
59
n
33
VAL
59
A
GLN
60
n
34
GLN
60
A
ILE
61
n
35
ILE
61
A
VAL
62
n
36
VAL
62
A
SER
63
n
37
SER
63
A
THR
64
n
38
THR
64
A
ALA
65
n
39
ALA
65
A
THR
66
n
40
THR
66
A
GLN
67
n
41
GLN
67
A
THR
68
n
42
THR
68
A
PHE
69
n
43
PHE
69
A
LEU
70
n
44
LEU
70
A
ALA
71
n
45
ALA
71
A
THR
72
n
46
THR
72
A
CYS
73
n
47
CYS
73
A
ILE
74
n
48
ILE
74
A
ASN
75
n
49
ASN
75
A
GLY
76
n
50
GLY
76
A
VAL
77
n
51
VAL
77
A
CYS
78
n
52
CYS
78
A
TRP
79
n
53
TRP
79
A
THR
80
n
54
THR
80
A
VAL
81
n
55
VAL
81
A
TYR
82
n
56
TYR
82
A
HIS
83
n
57
HIS
83
A
GLY
84
n
58
GLY
84
A
ALA
85
n
59
ALA
85
A
GLY
86
n
60
GLY
86
A
THR
87
n
61
THR
87
A
ARG
88
n
62
ARG
88
A
THR
89
n
63
THR
89
A
ILE
90
n
64
ILE
90
A
ALA
91
n
65
ALA
91
A
SER
92
n
66
SER
92
A
PRO
93
n
67
PRO
93
A
LYS
94
n
68
LYS
94
A
GLY
95
n
69
GLY
95
A
PRO
96
n
70
PRO
96
A
VAL
97
n
71
VAL
97
A
ILE
98
n
72
ILE
98
A
GLN
99
n
73
GLN
99
A
MET
100
n
74
MET
100
A
TYR
101
n
75
TYR
101
A
THR
102
n
76
THR
102
A
ASN
103
n
77
ASN
103
A
VAL
104
n
78
VAL
104
A
ASP
105
n
79
ASP
105
A
GLN
106
n
80
GLN
106
A
ASP
107
n
81
ASP
107
A
LEU
108
n
82
LEU
108
A
VAL
109
n
83
VAL
109
A
GLY
110
n
84
GLY
110
A
TRP
111
n
85
TRP
111
A
PRO
112
n
86
PRO
112
A
ALA
113
n
87
ALA
113
A
PRO
114
n
88
PRO
114
A
GLN
115
n
89
GLN
115
A
GLY
116
n
90
GLY
116
A
SER
117
n
91
SER
117
A
ARG
118
n
92
ARG
118
A
SER
119
n
93
SER
119
A
LEU
120
n
94
LEU
120
A
THR
121
n
95
THR
121
A
PRO
122
n
96
PRO
122
A
CYS
123
n
97
CYS
123
A
THR
124
n
98
THR
124
A
CYS
125
n
99
CYS
125
A
GLY
126
n
100
GLY
126
A
SER
127
n
101
SER
127
A
SER
128
n
102
SER
128
A
ASP
129
n
103
ASP
129
A
LEU
130
n
104
LEU
130
A
TYR
131
n
105
TYR
131
A
LEU
132
n
106
LEU
132
A
VAL
133
n
107
VAL
133
A
THR
134
n
108
THR
134
A
ARG
135
n
109
ARG
135
A
HIS
136
n
110
HIS
136
A
ALA
137
n
111
ALA
137
A
ASP
138
n
112
ASP
138
A
VAL
139
n
113
VAL
139
A
ILE
140
n
114
ILE
140
A
PRO
141
n
115
PRO
141
A
VAL
142
n
116
VAL
142
A
ARG
143
n
117
ARG
143
A
ARG
144
n
118
ARG
144
A
ARG
145
n
119
ARG
145
A
GLY
146
n
120
GLY
146
A
ASP
147
n
121
ASP
147
A
SER
148
n
122
SER
148
A
ARG
149
n
123
ARG
149
A
GLY
150
n
124
GLY
150
A
SER
151
n
125
SER
151
A
LEU
152
n
126
LEU
152
A
LEU
153
n
127
LEU
153
A
SER
154
n
128
SER
154
A
PRO
155
n
129
PRO
155
A
ARG
156
n
130
ARG
156
A
PRO
157
n
131
PRO
157
A
ILE
158
n
132
ILE
158
A
SER
159
n
133
SER
159
A
TYR
160
n
134
TYR
160
A
LEU
161
n
135
LEU
161
A
LYS
162
n
136
LYS
162
A
GLY
163
n
137
GLY
163
A
SER
164
n
138
SER
164
A
SER
165
n
139
SER
165
A
GLY
166
n
140
GLY
166
A
GLY
167
n
141
GLY
167
A
PRO
168
n
142
PRO
168
A
LEU
169
n
143
LEU
169
A
LEU
170
n
144
LEU
170
A
CYS
171
n
145
CYS
171
A
PRO
172
n
146
PRO
172
A
ALA
173
n
147
ALA
173
A
GLY
174
n
148
GLY
174
A
HIS
175
n
149
HIS
175
A
ALA
176
n
150
ALA
176
A
VAL
177
n
151
VAL
177
A
GLY
178
n
152
GLY
178
A
LEU
179
n
153
LEU
179
A
PHE
180
n
154
PHE
180
A
ARG
181
n
155
ARG
181
A
ALA
182
n
156
ALA
182
A
ALA
183
n
157
ALA
183
A
VAL
184
n
158
VAL
184
A
CYS
185
n
159
CYS
185
A
THR
186
n
160
THR
186
A
ARG
187
n
161
ARG
187
A
GLY
188
n
162
GLY
188
A
VAL
189
n
163
VAL
189
A
ALA
190
n
164
ALA
190
A
LYS
191
n
165
LYS
191
A
ALA
192
n
166
ALA
192
A
VAL
193
n
167
VAL
193
A
ASP
194
n
168
ASP
194
A
PHE
195
n
169
PHE
195
A
ILE
196
n
170
ILE
196
A
PRO
197
n
171
PRO
197
A
VAL
198
n
172
VAL
198
A
GLU
199
n
173
GLU
199
A
ASN
200
n
174
ASN
200
A
LEU
201
n
175
LEU
201
A
GLU
202
n
176
GLU
202
A
THR
203
n
177
THR
203
A
THR
204
n
178
THR
204
A
MET
205
n
179
MET
205
A
n
180
206
A
n
181
207
A
ALA
1027
n
1
ALA
1027
B
PRO
1028
n
2
PRO
1028
B
ILE
1029
n
3
ILE
1029
B
THR
1030
n
4
THR
1030
B
ALA
1031
n
5
ALA
1031
B
TYR
1032
n
6
TYR
1032
B
ALA
1033
n
7
ALA
1033
B
GLN
1034
n
8
GLN
1034
B
GLN
1035
n
9
GLN
1035
B
THR
1036
n
10
THR
1036
B
ARG
1037
n
11
ARG
1037
B
GLY
1038
n
12
GLY
1038
B
LEU
1039
n
13
LEU
1039
B
LEU
1040
n
14
LEU
1040
B
GLY
1041
n
15
GLY
1041
B
CYS
1042
n
16
CYS
1042
B
ILE
1043
n
17
ILE
1043
B
ILE
1044
n
18
ILE
1044
B
THR
1045
n
19
THR
1045
B
SER
1046
n
20
SER
1046
B
LEU
1047
n
21
LEU
1047
B
THR
1048
n
22
THR
1048
B
GLY
1049
n
23
GLY
1049
B
ARG
1050
n
24
ARG
1050
B
ASP
1051
n
25
ASP
1051
B
LYS
1052
n
26
LYS
1052
B
ASN
1053
n
27
ASN
1053
B
GLN
1054
n
28
GLN
1054
B
VAL
1055
n
29
VAL
1055
B
GLU
1056
n
30
GLU
1056
B
GLY
1057
n
31
GLY
1057
B
GLU
1058
n
32
GLU
1058
B
VAL
1059
n
33
VAL
1059
B
GLN
1060
n
34
GLN
1060
B
ILE
1061
n
35
ILE
1061
B
VAL
1062
n
36
VAL
1062
B
SER
1063
n
37
SER
1063
B
THR
1064
n
38
THR
1064
B
ALA
1065
n
39
ALA
1065
B
THR
1066
n
40
THR
1066
B
GLN
1067
n
41
GLN
1067
B
THR
1068
n
42
THR
1068
B
PHE
1069
n
43
PHE
1069
B
LEU
1070
n
44
LEU
1070
B
ALA
1071
n
45
ALA
1071
B
THR
1072
n
46
THR
1072
B
CYS
1073
n
47
CYS
1073
B
ILE
1074
n
48
ILE
1074
B
ASN
1075
n
49
ASN
1075
B
GLY
1076
n
50
GLY
1076
B
VAL
1077
n
51
VAL
1077
B
CYS
1078
n
52
CYS
1078
B
TRP
1079
n
53
TRP
1079
B
THR
1080
n
54
THR
1080
B
VAL
1081
n
55
VAL
1081
B
TYR
1082
n
56
TYR
1082
B
HIS
1083
n
57
HIS
1083
B
GLY
1084
n
58
GLY
1084
B
ALA
1085
n
59
ALA
1085
B
GLY
1086
n
60
GLY
1086
B
THR
1087
n
61
THR
1087
B
ARG
1088
n
62
ARG
1088
B
THR
1089
n
63
THR
1089
B
ILE
1090
n
64
ILE
1090
B
ALA
1091
n
65
ALA
1091
B
SER
1092
n
66
SER
1092
B
PRO
1093
n
67
PRO
1093
B
LYS
1094
n
68
LYS
1094
B
GLY
1095
n
69
GLY
1095
B
PRO
1096
n
70
PRO
1096
B
VAL
1097
n
71
VAL
1097
B
ILE
1098
n
72
ILE
1098
B
GLN
1099
n
73
GLN
1099
B
MET
1100
n
74
MET
1100
B
TYR
1101
n
75
TYR
1101
B
THR
1102
n
76
THR
1102
B
ASN
1103
n
77
ASN
1103
B
VAL
1104
n
78
VAL
1104
B
ASP
1105
n
79
ASP
1105
B
GLN
1106
n
80
GLN
1106
B
ASP
1107
n
81
ASP
1107
B
LEU
1108
n
82
LEU
1108
B
VAL
1109
n
83
VAL
1109
B
GLY
1110
n
84
GLY
1110
B
TRP
1111
n
85
TRP
1111
B
PRO
1112
n
86
PRO
1112
B
ALA
1113
n
87
ALA
1113
B
PRO
1114
n
88
PRO
1114
B
GLN
1115
n
89
GLN
1115
B
GLY
1116
n
90
GLY
1116
B
SER
1117
n
91
SER
1117
B
ARG
1118
n
92
ARG
1118
B
SER
1119
n
93
SER
1119
B
LEU
1120
n
94
LEU
1120
B
THR
1121
n
95
THR
1121
B
PRO
1122
n
96
PRO
1122
B
CYS
1123
n
97
CYS
1123
B
THR
1124
n
98
THR
1124
B
CYS
1125
n
99
CYS
1125
B
GLY
1126
n
100
GLY
1126
B
SER
1127
n
101
SER
1127
B
SER
1128
n
102
SER
1128
B
ASP
1129
n
103
ASP
1129
B
LEU
1130
n
104
LEU
1130
B
TYR
1131
n
105
TYR
1131
B
LEU
1132
n
106
LEU
1132
B
VAL
1133
n
107
VAL
1133
B
THR
1134
n
108
THR
1134
B
ARG
1135
n
109
ARG
1135
B
HIS
1136
n
110
HIS
1136
B
ALA
1137
n
111
ALA
1137
B
ASP
1138
n
112
ASP
1138
B
VAL
1139
n
113
VAL
1139
B
ILE
1140
n
114
ILE
1140
B
PRO
1141
n
115
PRO
1141
B
VAL
1142
n
116
VAL
1142
B
ARG
1143
n
117
ARG
1143
B
ARG
1144
n
118
ARG
1144
B
ARG
1145
n
119
ARG
1145
B
GLY
1146
n
120
GLY
1146
B
ASP
1147
n
121
ASP
1147
B
SER
1148
n
122
SER
1148
B
ARG
1149
n
123
ARG
1149
B
GLY
1150
n
124
GLY
1150
B
SER
1151
n
125
SER
1151
B
LEU
1152
n
126
LEU
1152
B
LEU
1153
n
127
LEU
1153
B
SER
1154
n
128
SER
1154
B
PRO
1155
n
129
PRO
1155
B
ARG
1156
n
130
ARG
1156
B
PRO
1157
n
131
PRO
1157
B
ILE
1158
n
132
ILE
1158
B
SER
1159
n
133
SER
1159
B
TYR
1160
n
134
TYR
1160
B
LEU
1161
n
135
LEU
1161
B
LYS
1162
n
136
LYS
1162
B
GLY
1163
n
137
GLY
1163
B
SER
1164
n
138
SER
1164
B
SER
1165
n
139
SER
1165
B
GLY
1166
n
140
GLY
1166
B
GLY
1167
n
141
GLY
1167
B
PRO
1168
n
142
PRO
1168
B
LEU
1169
n
143
LEU
1169
B
LEU
1170
n
144
LEU
1170
B
CYS
1171
n
145
CYS
1171
B
PRO
1172
n
146
PRO
1172
B
ALA
1173
n
147
ALA
1173
B
GLY
1174
n
148
GLY
1174
B
HIS
1175
n
149
HIS
1175
B
ALA
1176
n
150
ALA
1176
B
VAL
1177
n
151
VAL
1177
B
GLY
1178
n
152
GLY
1178
B
LEU
1179
n
153
LEU
1179
B
PHE
1180
n
154
PHE
1180
B
ARG
1181
n
155
ARG
1181
B
ALA
1182
n
156
ALA
1182
B
ALA
1183
n
157
ALA
1183
B
VAL
1184
n
158
VAL
1184
B
CYS
1185
n
159
CYS
1185
B
THR
1186
n
160
THR
1186
B
ARG
1187
n
161
ARG
1187
B
GLY
1188
n
162
GLY
1188
B
VAL
1189
n
163
VAL
1189
B
ALA
1190
n
164
ALA
1190
B
LYS
1191
n
165
LYS
1191
B
ALA
1192
n
166
ALA
1192
B
VAL
1193
n
167
VAL
1193
B
ASP
1194
n
168
ASP
1194
B
PHE
1195
n
169
PHE
1195
B
ILE
1196
n
170
ILE
1196
B
PRO
1197
n
171
PRO
1197
B
VAL
1198
n
172
VAL
1198
B
GLU
1199
n
173
GLU
1199
B
ASN
1200
n
174
ASN
1200
B
LEU
1201
n
175
LEU
1201
B
GLU
1202
n
176
GLU
1202
B
THR
1203
n
177
THR
1203
B
THR
1204
n
178
THR
1204
B
MET
1205
n
179
MET
1205
B
ARG
1206
n
180
ARG
1206
B
SER
1207
n
181
SER
1207
B
n
1
20
C
GLY
21
n
2
GLY
21
C
SER
22
n
3
SER
22
C
VAL
23
n
4
VAL
23
C
VAL
24
n
5
VAL
24
C
ILE
25
n
6
ILE
25
C
VAL
26
n
7
VAL
26
C
GLY
27
n
8
GLY
27
C
ARG
28
n
9
ARG
28
C
ILE
29
n
10
ILE
29
C
VAL
30
n
11
VAL
30
C
LEU
31
n
12
LEU
31
C
SER
32
n
13
SER
32
C
GLY
33
n
14
GLY
33
C
LYS
34
n
15
LYS
34
C
PRO
35
n
16
PRO
35
C
ALA
36
n
17
ALA
36
C
n
18
37
C
n
19
38
C
n
20
39
C
n
21
40
C
LYS
20
n
1
LYS
20
D
GLY
21
n
2
GLY
21
D
SER
22
n
3
SER
22
D
VAL
23
n
4
VAL
23
D
VAL
24
n
5
VAL
24
D
ILE
25
n
6
ILE
25
D
VAL
26
n
7
VAL
26
D
GLY
27
n
8
GLY
27
D
ARG
28
n
9
ARG
28
D
ILE
29
n
10
ILE
29
D
VAL
30
n
11
VAL
30
D
LEU
31
n
12
LEU
31
D
SER
32
n
13
SER
32
D
GLY
33
n
14
GLY
33
D
LYS
34
n
15
LYS
34
D
PRO
35
n
16
PRO
35
D
ALA
36
n
17
ALA
36
D
ILE
37
n
18
ILE
37
D
ILE
38
n
19
ILE
38
D
PRO
39
n
20
PRO
39
D
ALA
40
n
21
ALA
40
D
0.214
0.211
0.267
712
5.000
author_defined_assembly
2
dimeric
author_defined_assembly
2
dimeric
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
THR
89
A
N
THR
63
C
O
VAL
23
C
O
VAL
4
C
O
ILE
29
C
O
ILE
10
A
N
VAL
59
A
N
VAL
33
A
N
GLN
60
A
N
GLN
34
A
O
ALA
71
A
O
ALA
45
A
N
THR
72
A
N
THR
46
A
O
TRP
79
A
O
TRP
53
A
N
CYS
78
A
N
CYS
52
A
O
TRP
111
A
O
TRP
85
A
O
LEU
108
A
O
LEU
82
A
N
ASN
103
A
N
ASN
77
A
N
THR
89
A
N
THR
63
C
O
VAL
23
C
O
VAL
4
C
N
VAL
30
C
N
VAL
11
D
O
ALA
36
D
O
ALA
17
A
N
LEU
132
A
N
LEU
106
A
O
ILE
140
A
O
ILE
114
A
N
ARG
145
A
N
ARG
119
A
O
ARG
149
A
O
ARG
123
A
N
GLY
150
A
N
GLY
124
A
O
VAL
193
A
O
VAL
167
A
O
ASP
194
A
O
ASP
168
A
N
ALA
182
A
N
ALA
156
A
O
VAL
177
A
O
VAL
151
A
N
LEU
169
A
N
LEU
143
A
O
LEU
170
A
O
LEU
144
A
N
TYR
131
A
N
TYR
105
B
N
TYR
1032
B
N
TYR
6
D
O
VAL
30
D
O
VAL
11
D
O
VAL
26
D
O
VAL
7
B
N
ILE
1061
B
N
ILE
35
B
N
VAL
1062
B
N
VAL
36
B
O
PHE
1069
B
O
PHE
43
B
N
ILE
1074
B
N
ILE
48
B
O
VAL
1077
B
O
VAL
51
B
N
CYS
1078
B
N
CYS
52
B
O
TRP
1111
B
O
TRP
85
B
O
LEU
1108
B
O
LEU
82
B
N
ASN
1103
B
N
ASN
77
B
N
LEU
1130
B
N
LEU
104
B
O
VAL
1142
B
O
VAL
116
B
N
ARG
1143
B
N
ARG
117
B
O
SER
1151
B
O
SER
125
B
N
GLY
1150
B
N
GLY
124
B
O
VAL
1193
B
O
VAL
167
B
O
ALA
1192
B
O
ALA
166
B
N
VAL
1184
B
N
VAL
158
B
O
VAL
1177
B
O
VAL
151
B
N
LEU
1169
B
N
LEU
143
B
O
LEU
1170
B
O
LEU
144
B
N
TYR
1131
B
N
TYR
105
1
A
CG
LYS
162
A
CG
LYS
136
1
Y
1
A
CD
LYS
162
A
CD
LYS
136
1
Y
1
A
CE
LYS
162
A
CE
LYS
136
1
Y
1
A
NZ
LYS
162
A
NZ
LYS
136
1
Y
1
B
CG
GLN
1054
B
CG
GLN
28
1
Y
1
B
CD
GLN
1054
B
CD
GLN
28
1
Y
1
B
OE1
GLN
1054
B
OE1
GLN
28
1
Y
1
B
NE2
GLN
1054
B
NE2
GLN
28
1
Y
1
B
CG
LYS
1162
B
CG
LYS
136
1
Y
1
B
CD
LYS
1162
B
CD
LYS
136
1
Y
1
B
CE
LYS
1162
B
CE
LYS
136
1
Y
1
B
NZ
LYS
1162
B
NZ
LYS
136
1
Y
1
B
CG
LYS
1191
B
CG
LYS
165
1
Y
1
B
CD
LYS
1191
B
CD
LYS
165
1
Y
1
B
CE
LYS
1191
B
CE
LYS
165
1
Y
1
B
NZ
LYS
1191
B
NZ
LYS
165
1
Y
1
B
CG
GLU
1202
B
CG
GLU
176
1
Y
1
B
CD
GLU
1202
B
CD
GLU
176
1
Y
1
B
OE1
GLU
1202
B
OE1
GLU
176
1
Y
1
B
OE2
GLU
1202
B
OE2
GLU
176
1
Y
1
D
CG
LYS
34
D
CG
LYS
15
1
Y
1
D
CD
LYS
34
D
CD
LYS
15
1
Y
1
D
CE
LYS
34
D
CE
LYS
15
1
Y
1
D
NZ
LYS
34
D
NZ
LYS
15
1
Y
1
A
ALA
27
A
ALA
1
1
Y
1
A
PRO
28
A
PRO
2
1
Y
1
A
ILE
29
A
ILE
3
1
Y
1
A
THR
30
A
THR
4
1
Y
1
A
ALA
31
A
ALA
5
1
Y
1
A
TYR
32
A
TYR
6
1
Y
1
A
ALA
33
A
ALA
7
1
Y
1
A
GLN
34
A
GLN
8
1
Y
1
A
GLN
35
A
GLN
9
1
Y
1
A
THR
36
A
THR
10
1
Y
1
A
ARG
37
A
ARG
11
1
Y
1
A
GLY
38
A
GLY
12
1
Y
1
A
LEU
39
A
LEU
13
1
Y
1
A
LEU
40
A
LEU
14
1
Y
1
A
GLY
41
A
GLY
15
1
Y
1
A
CYS
42
A
CYS
16
1
Y
1
A
ILE
43
A
ILE
17
1
Y
1
A
ILE
44
A
ILE
18
1
Y
1
A
THR
45
A
THR
19
1
Y
1
A
SER
46
A
SER
20
1
Y
1
A
LEU
47
A
LEU
21
1
Y
1
A
THR
48
A
THR
22
1
Y
1
A
GLY
49
A
GLY
23
1
Y
1
A
ARG
50
A
ARG
24
1
Y
1
A
ASP
51
A
ASP
25
1
Y
1
A
LYS
52
A
LYS
26
1
Y
1
A
ASN
53
A
ASN
27
1
Y
1
A
GLN
54
A
GLN
28
1
Y
1
A
ARG
206
A
ARG
180
1
Y
1
A
SER
207
A
SER
181
1
Y
1
C
LYS
20
C
LYS
1
1
Y
1
C
ILE
37
C
ILE
18
1
Y
1
C
ILE
38
C
ILE
19
1
Y
1
C
PRO
39
C
PRO
20
1
Y
1
C
ALA
40
C
ALA
21
1
Y
1
B
C36
GG4
1208
PLANAR
1
B
B
OG
C26
SER
GG4
1165
1208
1.27
1
B
B
OG
C32
SER
GG4
1165
1208
1.92
1
A
PHE
69
-144.25
-157.82
1
A
SER
148
-145.30
31.06
1
B
PHE
1069
-164.67
-145.89
1
B
ASN
1075
36.98
51.37
1
B
HIS
1083
-69.24
9.62
1
B
THR
1124
-142.25
38.37
1
B
ARG
1187
55.26
16.37
protein_rep.param
protein.top
water_rep.param
water_rep.top
ion.param
ion.top
49.100
0.270
1.120
0.000
0.270
0.000
-0.550
0.267
0.010
0.210
0.213
2.900
19.960
709
14174
14133
5.000
86.300
RANDOM
4452504.000
0.000
1
RESTRAINED
THROUGHOUT
2.00
FOURIER SYNTHESIS
FLAT MODEL
23.408
0.317
0.440
0.350
5.000
0.580
0.560
2.900
19.960
0
2740
52
0
2688
0.007
1.000
20.800
0.780
1.280
1.500
2.320
2.000
1.640
2.000
2.670
2.500
0.379
0.037
0.323
3.080
107
1901
2008
6
5.300
74.500
49.500
2.9
20.0
2P59
14133
1
2.9
3.08
refinement
Axel T. Brunger
axel.brunger@yale.edu
Fortran_77
http://cns.csb.yale.edu/v1.1/
CNS
package
data extraction
PDB
sw-help@rcsb.rutgers.edu
April. 3, 2006
C++
http://pdb.rutgers.edu/software/
PDB_EXTRACT
package
2.000
data collection
CrystalClear
data reduction
DENZO
data scaling
SCALEPACK
refinement
CNX
2005
NS3
Crystal Structure of Hepatitis C Virus NS3.4A protease
1
N
N
1
N
N
2
N
N
2
N
N
3
N
N
A
TYR
82
A
TYR
56
HELX_P
A
GLY
86
A
GLY
60
1
1
5
A
VAL
104
A
VAL
78
HELX_P
A
GLN
106
A
GLN
80
5
2
3
A
ILE
158
A
ILE
132
HELX_P
A
LYS
162
A
LYS
136
1
3
5
A
VAL
198
A
VAL
172
HELX_P
A
MET
205
A
MET
179
1
4
8
B
GLY
1038
B
GLY
12
HELX_P
B
GLY
1049
B
GLY
23
1
5
12
B
TYR
1082
B
TYR
56
HELX_P
B
GLY
1086
B
GLY
60
1
6
5
B
ILE
1158
B
ILE
132
HELX_P
B
LYS
1162
B
LYS
136
1
7
5
B
VAL
1198
B
VAL
172
HELX_P
B
SER
1207
B
SER
181
1
8
10
disulf
2.927
A
CYS
123
A
SG
CYS
97
1_555
A
CYS
125
A
SG
CYS
99
1_555
disulf
2.551
A
CYS
125
A
SG
CYS
99
1_555
A
CYS
171
A
SG
CYS
145
1_555
disulf
2.829
B
CYS
1123
B
SG
CYS
97
1_555
B
CYS
1125
B
SG
CYS
99
1_555
VIRAL PROTEIN
HCV protease, VIRAL PROTEIN
A1Z093_9HEPC
UNP
1
1
A1Z093
APITAYAQQTRGLLGCIITSLTGRDKNQVEGEVQIVSTATQTFLATCINGVCWTVYHGAGTRTIASPKGPVIQMYTNVDQ
DLVGWPAPQGSRSLTPCTCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPISYLKGSSGGPLLCPAGHAVGLFRAAVCT
RGVAKAVDFIPVENLGTTMRS
2P59
PDB
2
2P59
1
181
2P59
27
207
A1Z093
A
1
1
181
1
181
2P59
1027
1207
A1Z093
B
1
1
181
20
40
2P59
20
40
2P59
C
2
1
21
20
40
2P59
20
40
2P59
D
2
1
21
1
GLY
CONFLICT
GLU
202
2P59
A
A1Z093
UNP
176
176
2
GLY
CONFLICT
GLU
1202
2P59
B
A1Z093
UNP
176
176
7
3
7
7
7
parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
anti-parallel
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
89
A
THR
63
A
ILE
90
A
ILE
64
C
SER
22
C
SER
3
C
VAL
30
C
VAL
11
A
VAL
59
A
VAL
33
A
SER
63
A
SER
37
A
THR
68
A
THR
42
A
ILE
74
A
ILE
48
A
VAL
77
A
VAL
51
A
VAL
81
A
VAL
55
A
LEU
108
A
LEU
82
A
PRO
112
A
PRO
86
A
TYR
101
A
TYR
75
A
ASN
103
A
ASN
77
A
THR
89
A
THR
63
A
ILE
90
A
ILE
64
C
SER
22
C
SER
3
C
VAL
30
C
VAL
11
D
ALA
36
D
ALA
17
D
ILE
37
D
ILE
18
A
ASP
129
A
ASP
103
A
VAL
133
A
VAL
107
A
VAL
139
A
VAL
113
A
GLY
146
A
GLY
120
A
ARG
149
A
ARG
123
A
PRO
157
A
PRO
131
A
VAL
189
A
VAL
163
A
PRO
197
A
PRO
171
A
ALA
176
A
ALA
150
A
THR
186
A
THR
160
A
PRO
168
A
PRO
142
A
LEU
170
A
LEU
144
A
ASP
129
A
ASP
103
A
VAL
133
A
VAL
107
B
TYR
1032
B
TYR
6
B
GLN
1035
B
GLN
9
D
VAL
24
D
VAL
5
D
VAL
30
D
VAL
11
B
VAL
1059
B
VAL
33
B
SER
1063
B
SER
37
B
THR
1068
B
THR
42
B
ILE
1074
B
ILE
48
B
VAL
1077
B
VAL
51
B
VAL
1081
B
VAL
55
B
LEU
1108
B
LEU
82
B
PRO
1112
B
PRO
86
B
TYR
1101
B
TYR
75
B
ASN
1103
B
ASN
77
B
ASP
1129
B
ASP
103
B
VAL
1133
B
VAL
107
B
VAL
1139
B
VAL
113
B
ARG
1144
B
ARG
118
B
GLY
1150
B
GLY
124
B
PRO
1157
B
PRO
131
B
VAL
1189
B
VAL
163
B
PRO
1197
B
PRO
171
B
ALA
1176
B
ALA
150
B
VAL
1184
B
VAL
158
B
PRO
1168
B
PRO
142
B
LEU
1170
B
LEU
144
B
ASP
1129
B
ASP
103
B
VAL
1133
B
VAL
107
BINDING SITE FOR RESIDUE GG4 B 1208
Software
13
B
GLN
1067
B
GLN
41
13
1_555
B
THR
1068
B
THR
42
13
1_555
B
HIS
1083
B
HIS
57
13
1_555
B
LYS
1162
B
LYS
136
13
1_555
B
GLY
1163
B
GLY
137
13
1_555
B
SER
1164
B
SER
138
13
1_555
B
SER
1165
B
SER
139
13
1_555
B
ARG
1181
B
ARG
155
13
1_555
B
ALA
1182
B
ALA
156
13
1_555
B
ALA
1183
B
ALA
157
13
1_555
B
VAL
1184
B
VAL
158
13
1_555
B
CYS
1185
B
CYS
159
13
1_555
B
ASP
1194
B
ASP
168
13
1_555
155
H 3 2