0.015030
0.000000
0.000000
0.000000
0.015030
0.000000
0.000000
0.000000
0.010433
0.00000
0.00000
0.00000
Kieft, J.S.
Zhou, K.
Grech, A.
Jubin, R.
Doudna, J.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
66.532
66.532
95.850
C9 H12 Br N2 O9 P
403.077
n
5-BROMO-URIDINE-5'-MONOPHOSPHATE
RNA linking
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C9 H14 N3 O8 P
323.197
y
CYTIDINE-5'-MONOPHOSPHATE
RNA linking
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
N
1
N
P
N
2
N
O
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
C
N
7
R
C
N
8
N
O
N
9
S
C
N
10
N
O
N
11
R
C
N
12
N
O
N
13
R
C
N
14
N
N
N
15
N
C
N
16
N
O
N
17
N
N
N
18
N
C
N
19
N
O
N
20
N
C
N
21
N
C
N
22
N
BR
N
23
N
H
N
24
N
H
N
25
N
H
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
O
N
36
N
P
N
37
N
O
N
38
N
O
N
39
N
O
N
40
N
C
N
41
R
C
N
42
N
O
N
43
S
C
N
44
N
O
N
45
R
C
N
46
N
O
N
47
R
C
Y
48
N
N
Y
49
N
C
Y
50
N
N
Y
51
N
C
Y
52
N
C
N
53
N
N
Y
54
N
N
Y
55
N
C
Y
56
N
N
Y
57
N
C
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
O
N
73
N
P
N
74
N
O
N
75
N
O
N
76
N
O
N
77
N
C
N
78
R
C
N
79
N
O
N
80
S
C
N
81
N
O
N
82
R
C
N
83
N
O
N
84
R
C
N
85
N
N
N
86
N
C
N
87
N
O
N
88
N
N
N
89
N
C
N
90
N
N
N
91
N
C
N
92
N
C
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
O
N
108
N
P
N
109
N
O
N
110
N
O
N
111
N
O
N
112
N
C
N
113
R
C
N
114
N
O
N
115
S
C
N
116
N
O
N
117
R
C
N
118
N
O
N
119
R
C
Y
120
N
N
Y
121
N
C
Y
122
N
N
Y
123
N
C
N
124
N
C
N
125
N
O
N
126
N
N
N
127
N
C
N
128
N
N
N
129
N
N
Y
130
N
C
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
O
N
146
N
P
N
147
N
O
N
148
N
O
N
149
N
O
N
150
N
C
N
151
R
C
N
152
N
O
N
153
S
C
N
154
N
O
N
155
R
C
N
156
N
O
N
157
R
C
N
158
N
N
N
159
N
C
N
160
N
O
N
161
N
N
N
162
N
C
N
163
N
O
N
164
N
C
N
165
N
C
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
1
N
doub
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
doub
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
doub
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
doub
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
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
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
Y
60
N
sing
Y
61
N
sing
Y
62
N
doub
N
63
N
sing
Y
64
N
sing
Y
65
N
sing
Y
66
N
doub
N
67
N
sing
Y
68
N
doub
N
69
N
sing
N
70
N
sing
Y
71
N
sing
Y
72
N
doub
N
73
N
sing
Y
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
doub
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
doub
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
Y
135
N
sing
Y
136
N
sing
Y
137
N
doub
N
138
N
sing
Y
139
N
sing
N
140
N
sing
Y
141
N
doub
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
doub
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
doub
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
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
doub
N
182
N
sing
N
183
N
doub
N
184
N
sing
N
185
N
sing
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
9
370
374
10.1038/nsb781
11927953
Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation.
2002
10.2210/pdb1kh6/pdb
pdb_00001kh6
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
MAD
M
x-ray
1
0.9204
1.0
0.9197
1.0
0.9273
1.0
0.9020
1.0
X25
NSLS
0.9204, 0.9197, 0.9273, 0.9020
SYNCHROTRON
NSLS BEAMLINE X25
JIIIabc is the structure of an RNA four-way junction from the Hepatitis C virus internal ribosome entry site. The junction joins domains IIIa, IIIb, and IIIc to the rest of domain III, and is critical for IRES function.
17634.660
JIIIabc
1
syn
polymer
no
yes
GGCGGAACCGGUGAG(5BU)ACACCGGAA(5BU)CCGAAAGGA(5BU)(5BU)(5BU)GGGCG(5BU)GCCCCCGCC
GGCGGAACCGGUGAGUACACCGGAAUCCGAAAGGAUUUGGGCGUGCCCCCGCC
A
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1
3.01
59.10
VAPOR DIFFUSION, SITTING DROP
4.6
30% MPD, 0.1 M sodium citrate pH 5.6, 0.2 M ammonium acetate, 2.5 mM magnesium chloride, and 1 mM spermidine, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 303K
303
MPD
1
sodium citrate
1
ammonium acetate
1
MgCl
1
spermidine
1
-17.637
1
19
A
1
A
53
-5.299
A_G1:C53_A
1
-7.010
0.026
-0.481
-0.137
-3.225
1
19
A
2
A
52
-2.713
A_G2:C52_A
2
-9.093
0.157
-0.031
-0.566
4.419
1
19
A
3
A
51
1.561
A_C3:G51_A
3
-5.535
0.115
-0.040
-0.411
-4.081
1
19
A
4
A
50
-1.585
A_G4:C50_A
4
-12.379
-0.255
-0.268
-0.307
-7.414
1
19
A
5
A
49
-7.232
A_G5:C49_A
5
-10.145
0.375
-0.118
-0.201
-6.391
1
19
A
39
A
48
-2.370
A_G39:C48_A
6
-2.065
-0.054
-0.473
-0.444
-7.295
1
19
A
40
A
47
0.483
A_G40:C47_A
7
-1.305
-0.068
-0.070
-0.350
-12.926
1
19
A
41
A
46
1.626
A_G41:C46_A
8
-11.846
-0.305
-0.210
-0.218
-6.216
1
19
A
42
A
45
-1.282
A_C42:G45_A
9
-2.079
0.733
-0.040
-0.484
-5.973
1
28
A
43
A
44
-4.976
A_G43:5BU44_A
10
-13.098
-1.584
-0.313
-0.354
15.389
A
21
A
10
0.957
A_C21:G10_A
11
37.782
-0.702
1.470
-0.743
6.092
1
A
22
A
9
21.328
A_G22:C9_A
12
11.052
0.216
-0.272
0.461
-5.742
1
19
A
23
A
8
5.468
A_G23:C8_A
13
-18.131
0.694
-0.505
-0.217
7.680
3
23
A
38
A
7
-67.396
A_5BU38:A7_A
14
-10.249
0.177
0.344
2.578
0.333
1
20
A
24
A
37
1.522
A_A24:5BU37_A
15
-8.169
-0.140
0.347
-0.010
9.843
1
20
A
25
A
36
2.195
A_A25:5BU36_A
16
-12.399
-0.707
0.392
-0.486
3.899
1
20
A
26
A
35
12.340
A_5BU26:A35_A
17
-16.750
0.925
0.297
-0.354
4.352
1
A
27
A
34
17.436
A_C27:G34_A
18
-9.439
1.666
-0.162
0.205
5.976
1
19
A
28
A
33
5.433
A_C28:G33_A
19
4.036
0.200
-0.609
0.003
2.043
32.728
A
A
1
2
21.205
A
A
53
52
2.911
11.572
0.111
-1.635
AA_G1G2:C52C53_AA
1
-8.225
15.071
29.565
-4.497
-1.331
3.026
32.799
A
A
2
3
2.127
A
A
52
51
3.091
1.201
-0.158
-1.825
AA_G2C3:G51C52_AA
2
-0.481
0.851
32.774
-3.425
0.202
2.293
26.622
A
A
3
4
23.301
A
A
51
50
3.455
10.433
-0.170
-2.231
AA_C3G4:C50G51_AA
3
2.588
-5.779
24.391
-7.358
0.993
2.829
36.008
A
A
4
5
13.136
A
A
50
49
3.345
8.056
0.286
-2.014
AA_G4G5:C49C50_AA
4
0.053
-0.087
35.125
-4.353
-0.455
2.400
41.965
A
A
5
39
18.904
A
A
49
48
3.308
13.268
-0.975
-1.834
AA_G5G39:C48C49_AA
5
6.819
-9.716
39.337
-3.808
2.003
3.109
32.112
A
A
39
40
4.415
A
A
48
47
3.295
2.439
0.000
-2.367
AA_G39G40:C47C48_AA
6
-1.163
2.104
32.001
-4.709
-0.205
2.664
29.354
A
A
40
41
15.095
A
A
47
46
3.333
7.489
0.686
-2.501
AA_G40G41:C46C47_AA
7
7.260
-14.634
27.476
-6.463
0.129
2.971
36.788
A
A
41
42
2.563
A
A
46
45
3.035
1.617
-0.465
-1.153
AA_G41C42:G45C46_AA
8
0.988
-1.567
36.741
-2.030
0.860
1.877
25.640
A
A
42
43
27.049
A
A
45
44
3.201
11.506
1.208
-2.611
AA_C42G43:5BU44G45_AA
9
4.920
-11.567
22.424
-8.585
-1.568
2.309
44.642
A
A
21
22
24.603
A
A
10
9
2.982
17.777
2.022
-2.477
AA_C21G22:C9G10_AA
10
16.354
-22.634
37.827
-4.702
-1.336
2.719
36.286
A
A
22
23
20.281
A
A
9
8
3.546
12.372
-0.106
-1.811
AA_G22G23:C8C9_AA
11
3.631
-5.953
33.990
-4.625
0.675
0.297
179.665
A
A
23
38
-40.630
A
A
8
7
0.211
-81.258
-0.809
-3.792
AA_G235BU38:A7C8_AA
12
-149.582
74.794
176.071
-1.894
0.401
-6.290
-161.643
A
A
38
24
11.680
A
A
7
37
-3.068
-21.567
5.370
-2.210
AA_5BU38A24:5BU37A7_AA
13
159.266
86.252
-35.453
0.657
-0.695
2.841
31.078
A
A
24
25
3.925
A
A
37
36
2.930
2.096
-0.242
-1.352
AA_A24A25:5BU365BU37_AA
14
-4.059
7.601
30.749
-2.880
-0.239
3.384
41.017
A
A
25
26
-0.654
A
A
36
35
3.392
-0.458
0.473
-0.903
AA_A255BU26:A355BU36_AA
15
-1.407
2.008
40.991
-1.236
-0.834
2.979
33.316
A
A
26
27
7.045
A
A
35
34
3.191
4.021
0.011
-1.455
AA_5BU26C27:G34A35_AA
16
3.870
-6.780
32.858
-3.173
0.592
2.629
22.260
A
A
27
28
14.412
A
A
34
33
3.281
5.504
-1.224
-1.945
AA_C27C28:G33G34_AA
17
1.319
-3.453
21.537
-6.939
3.625
chem_comp_atom
chem_comp_bond
database_2
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Database references
Structure summary
Data collection
Database references
Derived calculations
1
0
2002-04-26
1
1
2008-04-27
1
2
2011-07-13
1
3
2017-02-08
1
4
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
RCSB
Y
RCSB
2001-11-29
REL
REL
The sequence is from Hepatitis C virus genotype 1B. In Vitro Transcription.
sample
GUA
1
n
1
G
1
A
GUA
2
n
2
G
2
A
CYT
3
n
3
C
3
A
GUA
4
n
4
G
4
A
GUA
5
n
5
G
5
A
ADE
6
n
6
A
6
A
ADE
7
n
7
A
7
A
CYT
8
n
8
C
8
A
CYT
9
n
9
C
9
A
GUA
10
n
10
G
10
A
n
11
11
A
n
12
12
A
n
13
13
A
n
14
14
A
n
15
15
A
URI
16
n
16
5BU
16
A
ADE
17
n
17
A
17
A
CYT
18
n
18
C
18
A
ADE
19
n
19
A
19
A
CYT
20
n
20
C
20
A
CYT
21
n
21
C
21
A
GUA
22
n
22
G
22
A
GUA
23
n
23
G
23
A
ADE
24
n
24
A
24
A
ADE
25
n
25
A
25
A
URI
26
n
26
5BU
26
A
CYT
27
n
27
C
27
A
CYT
28
n
28
C
28
A
GUA
29
n
29
G
29
A
ADE
30
n
30
A
30
A
ADE
31
n
31
A
31
A
ADE
32
n
32
A
32
A
GUA
33
n
33
G
33
A
GUA
34
n
34
G
34
A
ADE
35
n
35
A
35
A
URI
36
n
36
5BU
36
A
URI
37
n
37
5BU
37
A
URI
38
n
38
5BU
38
A
GUA
39
n
39
G
39
A
GUA
40
n
40
G
40
A
GUA
41
n
41
G
41
A
CYT
42
n
42
C
42
A
GUA
43
n
43
G
43
A
URI
44
n
44
5BU
44
A
GUA
45
n
45
G
45
A
CYT
46
n
46
C
46
A
CYT
47
n
47
C
47
A
CYT
48
n
48
C
48
A
CYT
49
n
49
C
49
A
CYT
50
n
50
C
50
A
GUA
51
n
51
G
51
A
CYT
52
n
52
C
52
A
CYT
53
n
53
C
53
A
author_defined_assembly
1
monomeric
A
5BU
16
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
16
U
A
5BU
26
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
26
U
A
5BU
36
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
36
U
A
5BU
37
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
37
U
A
5BU
38
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
38
U
A
5BU
44
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
44
U
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
A
O5'
G
1
A
O5'
G
1
1
Y
1
A
P
5BU
16
A
P
5BU
16
1
Y
1
A
OP1
5BU
16
A
OP1
5BU
16
1
Y
1
A
OP2
5BU
16
A
OP2
5BU
16
1
Y
1
A
P
5BU
44
A
P
5BU
44
1
Y
1
A
OP1
5BU
44
A
OP1
5BU
44
1
Y
1
A
OP2
5BU
44
A
OP2
5BU
44
1
Y
1
A
G
11
A
G
11
1
Y
1
A
U
12
A
U
12
1
Y
1
A
G
13
A
G
13
1
Y
1
A
A
14
A
A
14
1
Y
1
A
G
15
A
G
15
1
Y
1
A
G
29
0.079
SIDE CHAIN
1
A
A
31
0.056
SIDE CHAIN
1
A
G
43
0.051
SIDE CHAIN
1
4.86
0.70
108.50
113.36
A
A
A
O4'
C1'
N9
G
G
G
43
43
43
N
0.2792
0.004
0.283
2.9
50
893
8744
9.8
95.9
random
10000
1
THROUGHOUT
0.0
2.9
50
0
1025
0
1025
0
2.8
50
1KH6
9652
0.0
1
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
Crystal Structure of an RNA Tertiary Domain Essential to HCV IRES-mediated Translation Initiation.
1
N
N
covale
1.610
both
A
5BU
16
A
O3'
5BU
16
1_555
A
A
17
A
P
A
17
1_555
covale
1.620
both
A
A
25
A
O3'
A
25
1_555
A
5BU
26
A
P
5BU
26
1_555
covale
1.601
both
A
5BU
26
A
O3'
5BU
26
1_555
A
C
27
A
P
C
27
1_555
covale
1.615
both
A
A
35
A
O3'
A
35
1_555
A
5BU
36
A
P
5BU
36
1_555
covale
1.613
both
A
5BU
36
A
O3'
5BU
36
1_555
A
5BU
37
A
P
5BU
37
1_555
covale
1.617
both
A
5BU
37
A
O3'
5BU
37
1_555
A
5BU
38
A
P
5BU
38
1_555
covale
1.616
both
A
5BU
38
A
O3'
5BU
38
1_555
A
G
39
A
P
G
39
1_555
covale
1.623
both
A
5BU
44
A
O3'
5BU
44
1_555
A
G
45
A
P
G
45
1_555
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
A
C
53
A
N3
C
53
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
A
C
53
A
O2
C
53
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
A
C
53
A
N4
C
53
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
A
C
52
A
N3
C
52
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
A
C
52
A
O2
C
52
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
A
C
52
A
N4
C
52
1_555
hydrog
WATSON-CRICK
A
C
3
A
N3
C
3
1_555
A
G
51
A
N1
G
51
1_555
hydrog
WATSON-CRICK
A
C
3
A
N4
C
3
1_555
A
G
51
A
O6
G
51
1_555
hydrog
WATSON-CRICK
A
C
3
A
O2
C
3
1_555
A
G
51
A
N2
G
51
1_555
hydrog
WATSON-CRICK
A
G
4
A
N1
G
4
1_555
A
C
50
A
N3
C
50
1_555
hydrog
WATSON-CRICK
A
G
4
A
N2
G
4
1_555
A
C
50
A
O2
C
50
1_555
hydrog
WATSON-CRICK
A
G
4
A
O6
G
4
1_555
A
C
50
A
N4
C
50
1_555
hydrog
WATSON-CRICK
A
G
5
A
N1
G
5
1_555
A
C
49
A
N3
C
49
1_555
hydrog
WATSON-CRICK
A
G
5
A
N2
G
5
1_555
A
C
49
A
O2
C
49
1_555
hydrog
WATSON-CRICK
A
G
5
A
O6
G
5
1_555
A
C
49
A
N4
C
49
1_555
hydrog
A-A MISPAIR
A
A
6
A
N6
A
6
1_555
A
A
25
A
N3
A
25
1_555
hydrog
A-5BU PAIR
A
A
6
A
N6
A
6
1_555
A
5BU
37
A
O2
5BU
37
1_555
hydrog
A-A MISPAIR
A
A
7
A
N6
A
7
1_555
A
A
24
A
N3
A
24
1_555
hydrog
HOOGSTEEN
A
A
7
A
N6
A
7
1_555
A
5BU
38
A
O4
5BU
38
1_555
hydrog
HOOGSTEEN
A
A
7
A
N7
A
7
1_555
A
5BU
38
A
N3
5BU
38
1_555
hydrog
WATSON-CRICK
A
C
8
A
N3
C
8
1_555
A
G
23
A
N1
G
23
1_555
hydrog
WATSON-CRICK
A
C
8
A
N4
C
8
1_555
A
G
23
A
O6
G
23
1_555
hydrog
WATSON-CRICK
A
C
8
A
O2
C
8
1_555
A
G
23
A
N2
G
23
1_555
hydrog
C-G PAIR
A
C
9
A
O2
C
9
1_555
A
G
22
A
N2
G
22
1_555
hydrog
G-C PAIR
A
G
10
A
N1
G
10
1_555
A
C
21
A
N3
C
21
1_555
hydrog
WATSON-CRICK
A
A
24
A
N1
A
24
1_555
A
5BU
37
A
N3
5BU
37
1_555
hydrog
WATSON-CRICK
A
A
24
A
N6
A
24
1_555
A
5BU
37
A
O4
5BU
37
1_555
hydrog
WATSON-CRICK
A
A
25
A
N1
A
25
1_555
A
5BU
36
A
N3
5BU
36
1_555
hydrog
WATSON-CRICK
A
A
25
A
N6
A
25
1_555
A
5BU
36
A
O4
5BU
36
1_555
hydrog
WATSON-CRICK
A
5BU
26
A
N3
5BU
26
1_555
A
A
35
A
N1
A
35
1_555
hydrog
WATSON-CRICK
A
5BU
26
A
O4
5BU
26
1_555
A
A
35
A
N6
A
35
1_555
hydrog
C-G PAIR
A
C
27
A
O2
C
27
1_555
A
G
34
A
N1
G
34
1_555
hydrog
WATSON-CRICK
A
C
28
A
N3
C
28
1_555
A
G
33
A
N1
G
33
1_555
hydrog
WATSON-CRICK
A
C
28
A
N4
C
28
1_555
A
G
33
A
O6
G
33
1_555
hydrog
WATSON-CRICK
A
C
28
A
O2
C
28
1_555
A
G
33
A
N2
G
33
1_555
hydrog
WATSON-CRICK
A
G
39
A
N1
G
39
1_555
A
C
48
A
N3
C
48
1_555
hydrog
WATSON-CRICK
A
G
39
A
N2
G
39
1_555
A
C
48
A
O2
C
48
1_555
hydrog
WATSON-CRICK
A
G
39
A
O6
G
39
1_555
A
C
48
A
N4
C
48
1_555
hydrog
WATSON-CRICK
A
G
40
A
N1
G
40
1_555
A
C
47
A
N3
C
47
1_555
hydrog
WATSON-CRICK
A
G
40
A
N2
G
40
1_555
A
C
47
A
O2
C
47
1_555
hydrog
WATSON-CRICK
A
G
40
A
O6
G
40
1_555
A
C
47
A
N4
C
47
1_555
hydrog
WATSON-CRICK
A
G
41
A
N1
G
41
1_555
A
C
46
A
N3
C
46
1_555
hydrog
WATSON-CRICK
A
G
41
A
N2
G
41
1_555
A
C
46
A
O2
C
46
1_555
hydrog
WATSON-CRICK
A
G
41
A
O6
G
41
1_555
A
C
46
A
N4
C
46
1_555
hydrog
WATSON-CRICK
A
C
42
A
N3
C
42
1_555
A
G
45
A
N1
G
45
1_555
hydrog
WATSON-CRICK
A
C
42
A
N4
C
42
1_555
A
G
45
A
O6
G
45
1_555
hydrog
WATSON-CRICK
A
C
42
A
O2
C
42
1_555
A
G
45
A
N2
G
45
1_555
hydrog
TYPE_28_PAIR
A
G
43
A
N1
G
43
1_555
A
5BU
44
A
O2
5BU
44
1_555
hydrog
TYPE_28_PAIR
A
G
43
A
O6
G
43
1_555
A
5BU
44
A
N3
5BU
44
1_555
RNA
translation, RNA structure, IRES, HCV, bromine, four-way junction, RNA
1KH6
PDB
1
1KH6
1
53
1KH6
1
53
1KH6
A
1
1
53
94
P 42 21 2