1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Lukavsky, P.J.
Kim, I.
Otto, G.A.
Puglisi, J.D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
10
1033
1038
10.1038/nsb1004
14578934
Structure of HCV IRES domain II determined by NMR.
2003
10.2210/pdb1p5o/pdb
pdb_00001p5o
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
24776.691
77-MER
HCV IRES domain II (residues 45-117)
1
syn
polymer
no
no
GGCUGUGAGGAACUACUGUCUUCACGCAGAAAGCGUCUAGCCAUGGCGUUAGUAUGAGUGUCGUGCAGCCUCCAGCC
GGCUGUGAGGAACUACUGUCUUCACGCAGAAAGCGUCUAGCCAUGGCGUUAGUAUGAGUGUCGUGCAGCCUCCAGCC
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
37.750
A
1
A
77
-5.915
A_G1:C77_A
1
-49.321
0.287
-0.065
-0.167
14.192
1
19
A
2
A
76
-13.190
A_G2:C76_A
2
-28.496
0.597
0.691
-0.157
10.777
1
19
A
3
A
75
-0.714
A_C3:G75_A
3
-24.492
-0.605
0.676
-0.153
21.002
1
20
A
4
A
74
-3.318
A_U4:A74_A
4
-19.806
-0.647
0.399
-0.060
-1.969
1
19
A
5
A
73
-0.909
A_G5:C73_A
5
-22.296
0.453
0.714
-0.240
-6.945
1
19
A
7
A
72
1.399
A_G7:C72_A
6
-26.203
0.550
0.385
-0.084
-3.011
1
A
8
A
71
15.469
A_A8:U71_A
7
-25.743
-0.485
1.047
-0.208
-11.469
1
A
9
A
70
6.844
A_G9:C70_A
8
-32.916
0.823
0.549
-0.036
11.191
1
19
A
10
A
69
-8.464
A_G10:C69_A
9
-8.360
0.509
0.883
-0.214
10.768
1
19
A
16
A
68
7.648
A_C16:G68_A
10
-31.070
-0.399
0.168
0.017
10.354
1
20
A
17
A
67
9.023
A_U17:A67_A
11
-24.568
0.414
0.627
-0.218
3.030
1
19
A
18
A
66
-5.779
A_G18:C66_A
12
-27.521
0.308
-0.017
-0.181
-5.956
28
A
19
A
65
-12.433
A_U19:G65_A
13
-15.813
2.160
-0.030
-0.516
-6.053
1
19
A
20
A
63
5.770
A_C20:G63_A
14
-16.924
-0.171
-0.378
-0.246
15.335
1
18
A
21
A
62
19.808
A_U21:C62_A
15
-15.699
-0.720
0.377
-1.613
0.111
1
19
A
23
A
60
9.262
A_C23:G60_A
16
-21.759
-0.429
-1.125
-0.502
-6.557
1
20
A
24
A
59
1.574
A_A24:U59_A
17
-11.161
-0.430
-0.421
-0.350
15.028
1
19
A
25
A
58
-1.463
A_C25:G58_A
18
-12.435
-0.307
-0.342
-0.121
25.173
A
26
A
57
60.971
A_G26:A57_A
19
0.678
1.038
0.350
-5.516
-3.555
1
19
A
27
A
56
0.046
A_C27:G56_A
20
-15.708
-0.243
-0.479
-0.254
-38.591
1
20
A
28
A
55
-10.970
A_A28:U55_A
21
5.863
0.150
-1.605
-0.121
2.182
9
11
A
29
A
54
-9.278
A_G29:A54_A
22
6.289
6.524
-0.927
-3.301
-0.789
4
24
A
30
A
53
-108.942
A_A30:U53_A
23
-15.655
-3.946
-1.065
-1.384
-31.405
8
2
A
31
A
51
-178.955
A_A31:A51_A
24
-16.420
-5.742
-0.629
4.547
6.537
28
A
33
A
49
6.891
A_G33:U49_A
25
-30.013
-2.437
-0.002
-0.409
8.877
1
19
A
34
A
48
4.299
A_C34:G48_A
26
-15.995
-0.251
-0.769
-0.142
-19.445
1
19
A
35
A
47
8.040
A_G35:C47_A
27
-11.155
0.161
-2.010
-0.623
2.808
1
A
36
A
46
7.656
A_U36:G46_A
28
6.407
1.145
-1.374
0.082
-0.132
1
19
A
37
A
45
-1.972
A_C37:G45_A
29
-4.452
-0.391
0.093
-0.101
2.296
10
A
39
A
43
-20.301
A_A39:A43_A
30
64.486
4.857
-1.893
-4.511
3.438
40.830
A
A
1
2
24.502
A
A
77
76
3.975
16.594
-0.175
-0.534
AA_G1G2:C76C77_AA
1
-4.964
7.329
37.116
-2.944
-0.401
3.354
36.939
A
A
2
3
-13.041
A
A
76
75
3.002
-8.182
1.576
-1.252
AA_G2C3:G75C76_AA
2
4.143
-6.603
35.821
-0.886
-1.936
3.292
31.499
A
A
3
4
-16.548
A
A
75
74
3.087
-8.868
0.132
-1.176
AA_C3U4:A74G75_AA
3
0.080
-0.150
30.255
-0.520
-0.228
3.403
34.904
A
A
4
5
6.017
A
A
74
73
3.612
3.600
0.124
-1.712
AA_U4G5:C73A74_AA
4
-2.701
4.515
34.622
-3.441
-0.647
2.964
37.588
A
A
5
7
5.295
A
A
73
72
3.125
3.405
-0.721
-1.014
AA_G5G7:C72C73_AA
5
2.822
-4.389
37.337
-1.988
1.462
2.472
37.056
A
A
7
8
5.963
A
A
72
71
2.614
3.778
0.324
-0.899
AA_G7A8:U71C72_AA
6
-3.492
5.512
36.709
-1.810
-0.876
2.931
41.293
A
A
8
9
12.605
A
A
71
70
3.214
8.817
-0.633
-0.764
AA_A8G9:C70U71_AA
7
3.354
-4.795
40.247
-1.986
1.241
2.519
31.309
A
A
9
10
-3.169
A
A
70
69
2.450
-1.705
-0.397
-0.784
AA_G9G10:C69C70_AA
8
-4.078
7.580
31.004
-1.207
0.148
2.671
38.811
A
A
16
17
23.304
A
A
68
67
3.174
15.067
-0.007
-0.657
AA_C16U17:A67G68_AA
9
-4.833
7.476
35.554
-2.710
-0.542
2.467
37.745
A
A
17
18
22.703
A
A
67
66
3.116
14.304
-0.784
-0.838
AA_U17G18:C66A67_AA
10
4.821
-7.652
34.697
-2.945
1.768
3.315
49.481
A
A
18
19
-3.816
A
A
66
65
3.240
-3.191
0.608
-0.935
AA_G18U19:G65C66_AA
11
2.400
-2.870
49.330
-0.880
-0.548
2.128
21.407
A
A
19
20
24.541
A
A
65
63
3.015
8.778
0.238
-1.487
AA_U19C20:G63G65_AA
12
4.508
-12.602
19.020
-6.981
0.889
2.414
32.139
A
A
20
21
28.858
A
A
63
62
2.713
15.121
0.913
0.852
AA_C20U21:C62G63_AA
13
-9.302
17.751
26.899
-0.786
-3.079
5.821
79.047
A
A
21
23
15.398
A
A
62
60
6.483
19.432
-1.285
-1.846
AA_U21C23:G60C62_AA
14
8.103
-6.421
76.638
-2.468
1.434
3.051
34.591
A
A
23
24
40.020
A
A
60
59
3.611
21.905
-0.266
0.400
AA_C23A24:U59G60_AA
15
-6.174
11.280
26.224
-3.280
-0.666
2.703
36.751
A
A
24
25
-3.041
A
A
59
58
2.660
-1.917
0.593
-1.088
AA_A24C25:G58U59_AA
16
-0.530
0.841
36.699
-1.511
-1.000
-0.697
175.761
A
A
25
26
-0.806
A
A
58
57
-0.058
-1.606
2.328
-3.929
AA_C25G26:A57G58_AA
17
-164.941
82.773
147.192
-1.966
-1.111
-1.690
175.919
A
A
26
27
-46.825
A
A
57
56
-3.802
-92.783
-0.631
-3.924
AA_G26C27:G56A57_AA
18
147.276
-74.326
93.061
-2.547
-0.610
4.959
26.601
A
A
27
28
7.219
A
A
56
55
5.341
3.298
-0.141
-2.021
AA_C27A28:U55G56_AA
19
4.423
-9.682
26.033
-5.770
2.156
2.314
65.370
A
A
28
29
-7.005
A
A
55
54
2.319
-7.547
-0.373
0.109
AA_A28G29:A54U55_AA
20
-4.393
4.077
64.848
0.322
0.216
2.699
-14.869
A
A
29
30
-73.984
A
A
54
53
3.386
14.238
-4.546
-1.376
AA_G29A30:U53A54_AA
21
1.523
7.914
-4.018
-12.393
-15.673
2.891
84.477
A
A
30
31
-2.643
A
A
53
51
2.886
-3.552
1.406
-0.789
AA_A30A31:A51U53_AA
22
-1.477
1.099
84.405
-0.514
-1.076
1.715
-17.483
A
A
31
33
-46.713
A
A
51
49
6.729
11.148
-0.276
1.054
AA_A31G33:U49A51_AA
23
-11.720
-49.107
-6.657
-16.270
-14.365
3.553
45.347
A
A
33
34
-11.716
A
A
49
48
3.437
-8.979
-0.213
-0.943
AA_G33C34:G48U49_AA
24
-0.141
0.183
44.495
-0.364
0.263
3.626
35.227
A
A
34
35
30.817
A
A
48
47
4.583
17.798
0.228
-0.720
AA_C34G35:C47G48_AA
25
3.814
-6.604
30.288
-4.781
0.392
2.533
33.654
A
A
35
36
9.079
A
A
47
46
2.743
5.217
0.071
-0.916
AA_G35U36:G46C47_AA
26
-5.101
8.878
32.876
-2.277
-0.803
3.953
24.566
A
A
36
37
-5.304
A
A
46
45
3.734
-2.241
-0.582
-2.122
AA_U36C37:G45G46_AA
27
-4.479
10.598
24.058
-4.166
-0.271
5.337
97.363
A
A
37
39
-10.512
A
A
45
43
5.512
-15.527
0.449
0.175
AA_C37A39:A43G45_AA
28
36.505
-24.715
90.844
0.576
0.783
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-11-04
1
1
2008-04-29
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
RCSB
Y
RCSB
2003-04-27
REL
REL
Synthesized by in vitro transcription from linearized plasmid DNA using T7 RNA polymerase
sample
The structure was solved using triple resonance, multidimensional NMR spectroscopy and TROSY-type experiments to measure residual dipolar couplings
lowest restraint violation and total energy
200
12
2D S-NOESY
2D NOESY
DQF-COSY
2D HP-COSY
3D_13C-separated_NOESY
3D HCP
3D HMQC TOCSY
100mM NaCl, 5mM MgCl2
6.40
ambient
288
K
100mM NaCl, 5mM MgCl2
6.40
ambient
298
K
100mM NaCl, 5mM MgCl2
6.40
ambient
303
K
see reference above
see reference above
1
closest to the average
0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride
96% D2O, 4% H2O
0.5-1.5mM HCV IRES domain II RNA
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride
100% D2O
0.5-1.5mM HCV IRES domain II RNA
U-15N,13C
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride
96% D2O, 4% H2O
0.5-1.5mM HCV IRES domain II RNA
U-15N,13C
10mM phosphate buffer 100mM sodium chloride 5mM magnesium chloride
100% D2O
Varian
processing
VNMR
6.1C
Goddard, T.D. & Kneller D.G.
data analysis
Sparky
3
Brunger, A.T.
refinement
X-PLOR
3.1
Brunger, A.T. et al
refinement
CNS
1.1
Zweckstetter, M. & Bax, A.
refinement
PALES
1
500
Varian
INOVA
800
Varian
INOVA
GUA
1
n
1
G
1
A
GUA
2
n
2
G
2
A
CYT
3
n
3
C
3
A
URI
4
n
4
U
4
A
GUA
5
n
5
G
5
A
URI
6
n
6
U
6
A
GUA
7
n
7
G
7
A
ADE
8
n
8
A
8
A
GUA
9
n
9
G
9
A
GUA
10
n
10
G
10
A
ADE
11
n
11
A
11
A
ADE
12
n
12
A
12
A
CYT
13
n
13
C
13
A
URI
14
n
14
U
14
A
ADE
15
n
15
A
15
A
CYT
16
n
16
C
16
A
URI
17
n
17
U
17
A
GUA
18
n
18
G
18
A
URI
19
n
19
U
19
A
CYT
20
n
20
C
20
A
URI
21
n
21
U
21
A
URI
22
n
22
U
22
A
CYT
23
n
23
C
23
A
ADE
24
n
24
A
24
A
CYT
25
n
25
C
25
A
GUA
26
n
26
G
26
A
CYT
27
n
27
C
27
A
ADE
28
n
28
A
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
CYT
34
n
34
C
34
A
GUA
35
n
35
G
35
A
URI
36
n
36
U
36
A
CYT
37
n
37
C
37
A
URI
38
n
38
U
38
A
ADE
39
n
39
A
39
A
GUA
40
n
40
G
40
A
CYT
41
n
41
C
41
A
CYT
42
n
42
C
42
A
ADE
43
n
43
A
43
A
URI
44
n
44
U
44
A
GUA
45
n
45
G
45
A
GUA
46
n
46
G
46
A
CYT
47
n
47
C
47
A
GUA
48
n
48
G
48
A
URI
49
n
49
U
49
A
URI
50
n
50
U
50
A
ADE
51
n
51
A
51
A
GUA
52
n
52
G
52
A
URI
53
n
53
U
53
A
ADE
54
n
54
A
54
A
URI
55
n
55
U
55
A
GUA
56
n
56
G
56
A
ADE
57
n
57
A
57
A
GUA
58
n
58
G
58
A
URI
59
n
59
U
59
A
GUA
60
n
60
G
60
A
URI
61
n
61
U
61
A
CYT
62
n
62
C
62
A
GUA
63
n
63
G
63
A
URI
64
n
64
U
64
A
GUA
65
n
65
G
65
A
CYT
66
n
66
C
66
A
ADE
67
n
67
A
67
A
GUA
68
n
68
G
68
A
CYT
69
n
69
C
69
A
CYT
70
n
70
C
70
A
URI
71
n
71
U
71
A
CYT
72
n
72
C
72
A
CYT
73
n
73
C
73
A
ADE
74
n
74
A
74
A
GUA
75
n
75
G
75
A
CYT
76
n
76
C
76
A
CYT
77
n
77
C
77
A
author_defined_assembly
1
monomeric
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
3
A
A
O2'
H61
A
A
39
43
1.58
3
A
A
O6
HO2'
G
G
29
52
1.58
4
A
A
O6
HO2'
G
G
29
52
1.50
6
A
A
O6
HO2'
G
G
29
52
1.57
7
A
A
H61
O2'
A
U
32
50
1.60
8
A
A
O6
HO2'
G
G
29
52
1.46
8
A
A
O6
H41
G
C
18
66
1.59
10
A
A
O2'
H61
A
A
39
43
1.59
11
A
A
H61
O4
A
U
28
55
1.51
2
A
C
76
0.059
SIDE CHAIN
Solution Structure of HCV IRES Domain II
1
N
N
hydrog
G-C PAIR
A
G
1
A
N1
G
1
1_555
A
C
77
A
N3
C
77
1_555
hydrog
G-G MISPAIR
A
G
2
A
O6
G
2
1_555
A
G
75
A
N1
G
75
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
A
C
76
A
N3
C
76
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
A
C
76
A
O2
C
76
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
A
C
76
A
N4
C
76
1_555
hydrog
WATSON-CRICK
A
C
3
A
N3
C
3
1_555
A
G
75
A
N1
G
75
1_555
hydrog
WATSON-CRICK
A
C
3
A
N4
C
3
1_555
A
G
75
A
O6
G
75
1_555
hydrog
WATSON-CRICK
A
C
3
A
O2
C
3
1_555
A
G
75
A
N2
G
75
1_555
hydrog
WATSON-CRICK
A
U
4
A
N3
U
4
1_555
A
A
74
A
N1
A
74
1_555
hydrog
WATSON-CRICK
A
U
4
A
O4
U
4
1_555
A
A
74
A
N6
A
74
1_555
hydrog
G-C PAIR
A
G
5
A
O6
G
5
1_555
A
C
72
A
N4
C
72
1_555
hydrog
WATSON-CRICK
A
G
5
A
N1
G
5
1_555
A
C
73
A
N3
C
73
1_555
hydrog
WATSON-CRICK
A
G
5
A
N2
G
5
1_555
A
C
73
A
O2
C
73
1_555
hydrog
WATSON-CRICK
A
G
5
A
O6
G
5
1_555
A
C
73
A
N4
C
73
1_555
hydrog
WATSON-CRICK
A
G
7
A
N1
G
7
1_555
A
C
72
A
N3
C
72
1_555
hydrog
WATSON-CRICK
A
G
7
A
N2
G
7
1_555
A
C
72
A
O2
C
72
1_555
hydrog
WATSON-CRICK
A
G
7
A
O6
G
7
1_555
A
C
72
A
N4
C
72
1_555
hydrog
A-U PAIR
A
A
8
A
N1
A
8
1_555
A
U
71
A
N3
U
71
1_555
hydrog
G-C PAIR
A
G
9
A
O6
G
9
1_555
A
C
69
A
N4
C
69
1_555
hydrog
G-C PAIR
A
G
9
A
N1
G
9
1_555
A
C
70
A
N3
C
70
1_555
hydrog
WATSON-CRICK
A
G
10
A
N1
G
10
1_555
A
C
69
A
N3
C
69
1_555
hydrog
WATSON-CRICK
A
G
10
A
N2
G
10
1_555
A
C
69
A
O2
C
69
1_555
hydrog
WATSON-CRICK
A
G
10
A
O6
G
10
1_555
A
C
69
A
N4
C
69
1_555
hydrog
WATSON-CRICK
A
C
16
A
N3
C
16
1_555
A
G
68
A
N1
G
68
1_555
hydrog
WATSON-CRICK
A
C
16
A
N4
C
16
1_555
A
G
68
A
O6
G
68
1_555
hydrog
WATSON-CRICK
A
C
16
A
O2
C
16
1_555
A
G
68
A
N2
G
68
1_555
hydrog
WATSON-CRICK
A
U
17
A
N3
U
17
1_555
A
A
67
A
N1
A
67
1_555
hydrog
WATSON-CRICK
A
U
17
A
O4
U
17
1_555
A
A
67
A
N6
A
67
1_555
hydrog
WATSON-CRICK
A
G
18
A
N1
G
18
1_555
A
C
66
A
N3
C
66
1_555
hydrog
WATSON-CRICK
A
G
18
A
N2
G
18
1_555
A
C
66
A
O2
C
66
1_555
hydrog
WATSON-CRICK
A
G
18
A
O6
G
18
1_555
A
C
66
A
N4
C
66
1_555
hydrog
TYPE_28_PAIR
A
U
19
A
N3
U
19
1_555
A
G
65
A
O6
G
65
1_555
hydrog
TYPE_28_PAIR
A
U
19
A
O2
U
19
1_555
A
G
65
A
N1
G
65
1_555
hydrog
WATSON-CRICK
A
C
20
A
N3
C
20
1_555
A
G
63
A
N1
G
63
1_555
hydrog
WATSON-CRICK
A
C
20
A
N4
C
20
1_555
A
G
63
A
O6
G
63
1_555
hydrog
WATSON-CRICK
A
C
20
A
O2
C
20
1_555
A
G
63
A
N2
G
63
1_555
hydrog
TYPE_18_PAIR
A
U
21
A
N3
U
21
1_555
A
C
62
A
N3
C
62
1_555
hydrog
TYPE_18_PAIR
A
U
21
A
O4
U
21
1_555
A
C
62
A
N4
C
62
1_555
hydrog
WATSON-CRICK
A
C
23
A
N3
C
23
1_555
A
G
60
A
N1
G
60
1_555
hydrog
WATSON-CRICK
A
C
23
A
N4
C
23
1_555
A
G
60
A
O6
G
60
1_555
hydrog
WATSON-CRICK
A
C
23
A
O2
C
23
1_555
A
G
60
A
N2
G
60
1_555
hydrog
WATSON-CRICK
A
A
24
A
N1
A
24
1_555
A
U
59
A
N3
U
59
1_555
hydrog
WATSON-CRICK
A
A
24
A
N6
A
24
1_555
A
U
59
A
O4
U
59
1_555
hydrog
WATSON-CRICK
A
C
25
A
N3
C
25
1_555
A
G
58
A
N1
G
58
1_555
hydrog
WATSON-CRICK
A
C
25
A
N4
C
25
1_555
A
G
58
A
O6
G
58
1_555
hydrog
WATSON-CRICK
A
C
25
A
O2
C
25
1_555
A
G
58
A
N2
G
58
1_555
hydrog
G-A MISPAIR
A
G
26
A
N7
G
26
1_555
A
A
57
A
N6
A
57
1_555
hydrog
WATSON-CRICK
A
C
27
A
N3
C
27
1_555
A
G
56
A
N1
G
56
1_555
hydrog
WATSON-CRICK
A
C
27
A
N4
C
27
1_555
A
G
56
A
O6
G
56
1_555
hydrog
WATSON-CRICK
A
C
27
A
O2
C
27
1_555
A
G
56
A
N2
G
56
1_555
hydrog
WATSON-CRICK
A
A
28
A
N1
A
28
1_555
A
U
55
A
N3
U
55
1_555
hydrog
WATSON-CRICK
A
A
28
A
N6
A
28
1_555
A
U
55
A
O4
U
55
1_555
hydrog
TYPE_11_PAIR
A
G
29
A
N2
G
29
1_555
A
A
54
A
N7
A
54
1_555
hydrog
TYPE_11_PAIR
A
G
29
A
N3
G
29
1_555
A
A
54
A
N6
A
54
1_555
hydrog
G-U MISPAIR
A
G
29
A
N2
G
29
1_555
A
U
55
A
O4
U
55
1_555
hydrog
REVERSED HOOGSTEEN
A
A
30
A
N6
A
30
1_555
A
U
53
A
O2
U
53
1_555
hydrog
REVERSED HOOGSTEEN
A
A
30
A
N7
A
30
1_555
A
U
53
A
N3
U
53
1_555
hydrog
TYPE_2_PAIR
A
A
31
A
N6
A
31
1_555
A
A
51
A
N7
A
51
1_555
hydrog
TYPE_2_PAIR
A
A
31
A
N7
A
31
1_555
A
A
51
A
N6
A
51
1_555
hydrog
TYPE_28_PAIR
A
G
33
A
N1
G
33
1_555
A
U
49
A
O2
U
49
1_555
hydrog
TYPE_28_PAIR
A
G
33
A
O6
G
33
1_555
A
U
49
A
N3
U
49
1_555
hydrog
WATSON-CRICK
A
C
34
A
N3
C
34
1_555
A
G
48
A
N1
G
48
1_555
hydrog
WATSON-CRICK
A
C
34
A
N4
C
34
1_555
A
G
48
A
O6
G
48
1_555
hydrog
WATSON-CRICK
A
C
34
A
O2
C
34
1_555
A
G
48
A
N2
G
48
1_555
hydrog
WATSON-CRICK
A
G
35
A
N1
G
35
1_555
A
C
47
A
N3
C
47
1_555
hydrog
WATSON-CRICK
A
G
35
A
N2
G
35
1_555
A
C
47
A
O2
C
47
1_555
hydrog
WATSON-CRICK
A
G
35
A
O6
G
35
1_555
A
C
47
A
N4
C
47
1_555
hydrog
U-G MISPAIR
A
U
36
A
O2
U
36
1_555
A
G
46
A
N1
G
46
1_555
hydrog
WATSON-CRICK
A
C
37
A
N3
C
37
1_555
A
G
45
A
N1
G
45
1_555
hydrog
WATSON-CRICK
A
C
37
A
N4
C
37
1_555
A
G
45
A
O6
G
45
1_555
hydrog
WATSON-CRICK
A
C
37
A
O2
C
37
1_555
A
G
45
A
N2
G
45
1_555
hydrog
A-A MISPAIR
A
A
39
A
N3
A
39
1_555
A
A
43
A
N6
A
43
1_555
hydrog
G-U MISPAIR
A
G
52
A
N2
G
52
1_555
A
U
53
A
O4
U
53
1_555
RNA
RIBONUCLEIC ACID, HEPATITIS C VIRUS, INTERNAL RIBOSOME ENTRY SITE, tRNA, LOOP E MOTIF, HAIRPIN LOOP, RNA
1P5O
PDB
1
1P5O
1
77
1P5O
1
77
1P5O
A
1
1
77