1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Matsugami, A.
Kobayashi, S.
Ouhashi, K.
Uesugi, S.
Yamamoto, R.
Taira, K.
Nishikawa, S.
Kumar, P.K.R.
Katahira, M.
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
C6 H15 N4 O2 1
175.209
n
2-AMINO-5-GUANIDINO-PENTANOIC ACID
L-argininium(2+); L-argininediium
L-peptide linking
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
N
1
N
O
N
2
N
P
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
Y
14
N
N
Y
15
N
C
Y
16
N
N
Y
17
N
C
Y
18
N
C
N
19
N
N
Y
20
N
N
Y
21
N
C
Y
22
N
N
Y
23
N
C
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
H
N
36
N
H
N
37
N
H
N
38
N
O
N
39
N
P
N
40
N
O
N
41
N
O
N
42
N
O
N
43
N
C
N
44
R
C
N
45
N
O
N
46
S
C
N
47
N
O
N
48
R
C
N
49
N
O
N
50
R
C
N
51
N
N
N
52
N
C
N
53
N
O
N
54
N
N
N
55
N
C
N
56
N
N
N
57
N
C
N
58
N
C
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
H
N
73
N
O
N
74
N
P
N
75
N
O
N
76
N
O
N
77
N
O
N
78
N
C
N
79
R
C
N
80
N
O
N
81
S
C
N
82
N
O
N
83
R
C
N
84
N
O
N
85
R
C
Y
86
N
N
Y
87
N
C
Y
88
N
N
Y
89
N
C
N
90
N
C
N
91
N
O
N
92
N
N
N
93
N
C
N
94
N
N
N
95
N
N
Y
96
N
C
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
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
S
C
N
112
N
C
N
113
N
C
N
114
N
C
N
115
N
N
N
116
N
C
N
117
N
N
N
118
N
N
N
119
N
C
N
120
N
O
N
121
N
O
N
122
N
N
N
123
N
H
N
124
N
H
N
125
N
H
N
126
N
H
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
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
O
N
139
N
P
N
140
N
O
N
141
N
O
N
142
N
O
N
143
N
C
N
144
R
C
N
145
N
O
N
146
S
C
N
147
N
O
N
148
R
C
N
149
N
O
N
150
R
C
N
151
N
N
N
152
N
C
N
153
N
O
N
154
N
N
N
155
N
C
N
156
N
O
N
157
N
C
N
158
N
C
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
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
1
N
sing
N
2
N
sing
N
3
N
doub
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
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
Y
29
N
sing
Y
30
N
sing
Y
31
N
doub
N
32
N
sing
Y
33
N
doub
N
34
N
sing
N
35
N
sing
Y
36
N
sing
Y
37
N
doub
N
38
N
sing
Y
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
doub
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
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
doub
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
doub
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
doub
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
Y
100
N
sing
Y
101
N
sing
Y
102
N
doub
N
103
N
sing
Y
104
N
sing
N
105
N
sing
Y
106
N
doub
N
107
N
doub
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
doub
N
113
N
sing
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
doub
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
doub
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
doub
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
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
doub
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
doub
N
173
N
sing
N
174
N
doub
N
175
N
sing
N
176
N
sing
UK
Structure
STRUE6
2005
0969-2126
11
533
545
10.1016/S0969-2126(03)00069-8
12737819
Structural Basis of the Highly Efficient Trapping of the HIV Tat Protein by an RNA Aptamer
2003
10.2210/pdb1nbk/pdb
pdb_00001nbk
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
10921.535
RNA aptamer
1
syn
polymer
175.209
2-AMINO-5-GUANIDINO-PENTANOIC ACID
2
syn
non-polymer
no
no
GGGAGCUUGAUCCCGGAAACGGUCGAUCGCUCCC
GGGAGCUUGAUCCCGGAAACGGUCGAUCGCUCCC
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
4.019
1
19
A
1
A
34
-3.324
A_G1:C34_A
1
-1.217
-0.068
0.336
0.043
-0.026
1
19
A
2
A
33
-9.481
A_G2:C33_A
2
-2.743
-0.093
0.079
-0.338
-13.348
1
19
A
3
A
32
-14.224
A_G3:C32_A
3
-3.025
0.452
-0.803
-0.186
9.392
1
20
A
4
A
31
-10.397
A_A4:U31_A
4
6.216
0.861
0.258
0.110
5.522
1
19
A
5
A
30
-0.730
A_G5:C30_A
5
-1.224
0.600
-0.399
-0.136
10.335
1
19
A
6
A
29
-10.815
A_C6:G29_A
6
-11.134
0.636
0.006
-0.535
0.035
1
19
A
9
A
28
-9.242
A_G9:C28_A
7
-2.691
-0.284
0.268
-0.344
17.705
1
20
A
10
A
27
3.553
A_A10:U27_A
8
3.601
-0.052
-0.007
-0.253
-0.559
1
20
A
11
A
26
-0.874
A_U11:A26_A
9
-0.866
-0.580
-0.025
-0.067
0.424
1
19
A
12
A
25
-10.028
A_C12:G25_A
10
-1.160
-0.156
-0.148
-0.234
-12.621
1
19
A
13
A
22
1.077
A_C13:G22_A
11
-19.756
0.706
-0.741
-0.821
-10.232
1
19
A
14
A
21
0.095
A_C14:G21_A
12
12.854
-0.077
0.348
-0.007
45.560
1
19
A
15
A
20
-13.307
A_G15:C20_A
13
28.313
-0.141
-0.159
-0.373
6.972
10
11
A
16
A
19
-18.262
A_G16:A19_A
14
-28.147
6.810
0.201
-4.793
3.291
50.868
A
A
1
2
22.929
A
A
34
33
3.626
19.101
-1.822
-1.133
AA_G1G2:C33C34_AA
1
-11.718
14.067
45.964
-2.817
1.202
1.018
31.605
A
A
2
3
43.175
A
A
33
32
4.068
21.332
0.083
-2.917
AA_G2G3:C32C33_AA
2
5.749
-11.635
22.743
-8.963
0.821
2.946
43.547
A
A
3
4
-21.731
A
A
32
31
2.730
-15.787
0.942
-1.153
AA_G3A4:U31C32_AA
3
-0.671
0.923
40.709
-0.183
-1.328
2.712
22.847
A
A
4
5
19.467
A
A
31
30
3.765
7.485
-0.501
-1.848
AA_A4G5:C30U31_AA
4
5.769
-15.005
20.824
-7.436
3.401
2.628
36.495
A
A
5
6
15.329
A
A
30
29
3.020
9.483
-0.861
-1.436
AA_G5C6:G29C30_AA
5
-3.484
5.633
35.114
-3.449
0.951
2.712
55.217
A
A
6
9
12.103
A
A
29
28
3.327
11.143
-2.811
-1.888
AA_C6G9:C28G29_AA
6
4.162
-4.520
54.019
-2.651
3.262
2.964
18.521
A
A
9
10
1.636
A
A
28
27
3.015
0.526
0.310
-1.096
AA_G9A10:U27C28_AA
7
-0.920
2.859
18.491
-3.668
-1.419
5.232
36.507
A
A
10
11
-19.745
A
A
27
26
4.762
-12.146
-0.663
-2.188
AA_A10U11:A26U27_AA
8
-1.203
1.955
34.472
-0.848
0.796
2.057
27.970
A
A
11
12
25.604
A
A
26
25
3.151
11.968
0.349
-1.779
AA_U11C12:G25A26_AA
9
-2.839
6.073
25.169
-6.067
-1.288
3.034
65.368
A
A
12
13
16.828
A
A
25
22
3.691
17.974
2.536
-1.450
AA_C12C13:G22G25_AA
10
-5.048
4.727
62.931
-2.123
-2.567
1.136
35.506
A
A
13
14
51.731
A
A
22
21
3.051
27.564
-0.041
-1.015
AA_C13C14:G21G22_AA
11
-5.231
9.818
21.982
-4.903
-0.547
2.376
28.448
A
A
14
15
-18.423
A
A
21
20
2.127
-8.877
-0.497
-0.994
AA_C14G15:C20G21_AA
12
-4.058
8.421
26.754
-0.577
0.350
5.957
51.170
A
A
15
16
6.775
A
A
20
19
6.065
5.840
-2.275
-1.214
AA_G15G16:A19C20_AA
13
-1.398
1.622
50.840
-2.149
2.456
database_2
pdbx_struct_assembly
pdbx_struct_oper_list
struct_site
chem_comp_atom
chem_comp_bond
chem_comp
pdbx_entity_src_syn
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Data collection
Source and taxonomy
Structure summary
1
0
2003-12-03
1
1
2008-04-28
1
2
2011-07-13
1
3
2022-02-23
1
4
2024-05-29
1
5
2024-09-18
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
_chem_comp.mon_nstd_flag
_chem_comp.pdbx_synonyms
RCSB
Y
PDBJ
2002-12-03
REL
GND
2-AMINO-5-GUANIDINO-PENTANOIC ACID
32630
synthetic construct
sample
1
3D_15N-separated_NOESY
3D_13C-separated_NOESY
2D NOESY
2D NOESY
2D TOCSY
DQF-COSY
1H-31P HetCor
spin echo difference CT 1H-13C HSQC
HNN-COSY
HNN-COSY
6.7
ambient
278
K
6.7
ambient
308
K
simulated annealing
1
lowest energy
1.7mM RNA U-15N,13C; 6.8mM argininamide; 10mM sodium phosphate buffer; 30mM NaCl; 0.1mM EDTA
95% H2O/5% D2O
1.7mM RNA U-15N,13C; 6.8mM argininamide; 10mM sodium phosphate buffer; 30mM NaCl; 0.1mM EDTA
100% D2O
1.7mM RNA; 6.8mM argininamide; 10mM sodium phosphate buffer; 30mM NaCl; 0.1mM EDTA
95% H2O/5% D2O
1.7mM RNA; 6.8mM argininamide; 10mM sodium phosphate buffer; 30mM NaCl; 0.1mM EDTA
100% D2O
Brunger
structure solution
X-PLOR
3.851
Brunger
refinement
X-PLOR
3.851
600
Bruker
DRX
ARG
35
2
GND
GND
35
A
ARG
36
2
GND
GND
36
A
G
1
n
1
G
1
A
G
2
n
2
G
2
A
G
3
n
3
G
3
A
A
4
n
4
A
4
A
G
5
n
5
G
5
A
C
6
n
6
C
6
A
U
7
n
7
U
7
A
U
8
n
8
U
8
A
G
9
n
9
G
9
A
A
10
n
10
A
10
A
U
11
n
11
U
11
A
C
12
n
12
C
12
A
C
13
n
13
C
13
A
C
14
n
14
C
14
A
G
15
n
15
G
15
A
G
16
n
16
G
16
A
A
17
n
17
A
17
A
A
18
n
18
A
18
A
A
19
n
19
A
19
A
C
20
n
20
C
20
A
G
21
n
21
G
21
A
G
22
n
22
G
22
A
U
23
n
23
U
23
A
C
24
n
24
C
24
A
G
25
n
25
G
25
A
A
26
n
26
A
26
A
U
27
n
27
U
27
A
C
28
n
28
C
28
A
G
29
n
29
G
29
A
C
30
n
30
C
30
A
U
31
n
31
U
31
A
C
32
n
32
C
32
A
C
33
n
33
C
33
A
C
34
n
34
C
34
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
1
A
A
H21
OP2
G
A
16
19
1.39
1
A
A
O6
H41
G
C
2
33
1.42
1
A
A
N7
HH22
G
GND
25
36
1.47
1
A
A
H41
O6
C
G
12
25
1.48
1
A
A
H41
O6
C
G
6
29
1.48
1
A
A
O6
H41
G
C
9
28
1.51
1
A
A
O6
H41
G
C
15
20
1.51
1
A
A
H41
O6
C
G
13
22
1.53
1
A
A
O2'
H5'
A
U
26
27
1.57
1
A
A
O6
H41
G
C
3
32
1.58
1
4.56
0.50
113.10
117.66
A
A
A
N7
C8
N9
G
G
G
1
1
1
N
1
-2.68
0.40
106.40
103.72
A
A
A
C8
N9
C4
G
G
G
1
1
1
N
1
4.51
0.50
113.10
117.61
A
A
A
N7
C8
N9
G
G
G
2
2
2
N
1
-2.69
0.40
106.40
103.71
A
A
A
C8
N9
C4
G
G
G
2
2
2
N
1
4.53
0.50
113.10
117.63
A
A
A
N7
C8
N9
G
G
G
3
3
3
N
1
-2.64
0.40
106.40
103.76
A
A
A
C8
N9
C4
G
G
G
3
3
3
N
1
3.71
0.50
113.80
117.51
A
A
A
N7
C8
N9
A
A
A
4
4
4
N
1
4.54
0.50
113.10
117.64
A
A
A
N7
C8
N9
G
G
G
5
5
5
N
1
-2.62
0.40
106.40
103.78
A
A
A
C8
N9
C4
G
G
G
5
5
5
N
1
4.37
0.50
113.10
117.47
A
A
A
N7
C8
N9
G
G
G
9
9
9
N
1
-2.76
0.40
106.40
103.64
A
A
A
C8
N9
C4
G
G
G
9
9
9
N
1
3.70
0.50
113.80
117.50
A
A
A
N7
C8
N9
A
A
A
10
10
10
N
1
4.56
0.50
113.10
117.66
A
A
A
N7
C8
N9
G
G
G
15
15
15
N
1
-2.61
0.40
106.40
103.79
A
A
A
C8
N9
C4
G
G
G
15
15
15
N
1
4.50
0.50
113.10
117.60
A
A
A
N7
C8
N9
G
G
G
16
16
16
N
1
-2.63
0.40
106.40
103.77
A
A
A
C8
N9
C4
G
G
G
16
16
16
N
1
3.80
0.50
113.80
117.60
A
A
A
N7
C8
N9
A
A
A
17
17
17
N
1
3.84
0.50
113.80
117.64
A
A
A
N7
C8
N9
A
A
A
18
18
18
N
1
3.85
0.50
113.80
117.65
A
A
A
N7
C8
N9
A
A
A
19
19
19
N
1
4.52
0.50
113.10
117.62
A
A
A
N7
C8
N9
G
G
G
21
21
21
N
1
-2.62
0.40
106.40
103.78
A
A
A
C8
N9
C4
G
G
G
21
21
21
N
1
4.59
0.50
113.10
117.69
A
A
A
N7
C8
N9
G
G
G
22
22
22
N
1
-2.62
0.40
106.40
103.78
A
A
A
C8
N9
C4
G
G
G
22
22
22
N
1
4.54
0.50
113.10
117.64
A
A
A
N7
C8
N9
G
G
G
25
25
25
N
1
-2.70
0.40
106.40
103.70
A
A
A
C8
N9
C4
G
G
G
25
25
25
N
1
3.70
0.50
113.80
117.50
A
A
A
N7
C8
N9
A
A
A
26
26
26
N
1
4.55
0.50
113.10
117.65
A
A
A
N7
C8
N9
G
G
G
29
29
29
N
1
-2.68
0.40
106.40
103.72
A
A
A
C8
N9
C4
G
G
G
29
29
29
N
The structure of RNA aptamer for HIV Tat complexed with two argininamide molecules
1
N
N
2
N
N
2
N
N
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
A
C
34
A
N3
C
34
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
A
C
34
A
O2
C
34
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
A
C
34
A
N4
C
34
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
A
C
33
A
N3
C
33
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
A
C
33
A
O2
C
33
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
A
C
33
A
N4
C
33
1_555
hydrog
WATSON-CRICK
A
G
3
A
N1
G
3
1_555
A
C
32
A
N3
C
32
1_555
hydrog
WATSON-CRICK
A
G
3
A
N2
G
3
1_555
A
C
32
A
O2
C
32
1_555
hydrog
WATSON-CRICK
A
G
3
A
O6
G
3
1_555
A
C
32
A
N4
C
32
1_555
hydrog
WATSON-CRICK
A
A
4
A
N1
A
4
1_555
A
U
31
A
N3
U
31
1_555
hydrog
WATSON-CRICK
A
A
4
A
N6
A
4
1_555
A
U
31
A
O4
U
31
1_555
hydrog
WATSON-CRICK
A
G
5
A
N1
G
5
1_555
A
C
30
A
N3
C
30
1_555
hydrog
WATSON-CRICK
A
G
5
A
N2
G
5
1_555
A
C
30
A
O2
C
30
1_555
hydrog
WATSON-CRICK
A
G
5
A
O6
G
5
1_555
A
C
30
A
N4
C
30
1_555
hydrog
WATSON-CRICK
A
C
6
A
N3
C
6
1_555
A
G
29
A
N1
G
29
1_555
hydrog
WATSON-CRICK
A
C
6
A
N4
C
6
1_555
A
G
29
A
O6
G
29
1_555
hydrog
WATSON-CRICK
A
C
6
A
O2
C
6
1_555
A
G
29
A
N2
G
29
1_555
hydrog
HOOGSTEEN
A
U
7
A
N3
U
7
1_555
A
A
10
A
N7
A
10
1_555
hydrog
HOOGSTEEN
A
U
7
A
O4
U
7
1_555
A
A
10
A
N6
A
10
1_555
hydrog
WATSON-CRICK
A
G
9
A
N1
G
9
1_555
A
C
28
A
N3
C
28
1_555
hydrog
WATSON-CRICK
A
G
9
A
N2
G
9
1_555
A
C
28
A
O2
C
28
1_555
hydrog
WATSON-CRICK
A
G
9
A
O6
G
9
1_555
A
C
28
A
N4
C
28
1_555
hydrog
WATSON-CRICK
A
A
10
A
N1
A
10
1_555
A
U
27
A
N3
U
27
1_555
hydrog
WATSON-CRICK
A
A
10
A
N6
A
10
1_555
A
U
27
A
O4
U
27
1_555
hydrog
WATSON-CRICK
A
U
11
A
N3
U
11
1_555
A
A
26
A
N1
A
26
1_555
hydrog
WATSON-CRICK
A
U
11
A
O4
U
11
1_555
A
A
26
A
N6
A
26
1_555
hydrog
WATSON-CRICK
A
C
12
A
N3
C
12
1_555
A
G
25
A
N1
G
25
1_555
hydrog
WATSON-CRICK
A
C
12
A
N4
C
12
1_555
A
G
25
A
O6
G
25
1_555
hydrog
WATSON-CRICK
A
C
12
A
O2
C
12
1_555
A
G
25
A
N2
G
25
1_555
hydrog
WATSON-CRICK
A
C
13
A
N3
C
13
1_555
A
G
22
A
N1
G
22
1_555
hydrog
WATSON-CRICK
A
C
13
A
N4
C
13
1_555
A
G
22
A
O6
G
22
1_555
hydrog
WATSON-CRICK
A
C
13
A
O2
C
13
1_555
A
G
22
A
N2
G
22
1_555
hydrog
WATSON-CRICK
A
C
14
A
N3
C
14
1_555
A
G
21
A
N1
G
21
1_555
hydrog
WATSON-CRICK
A
C
14
A
N4
C
14
1_555
A
G
21
A
O6
G
21
1_555
hydrog
WATSON-CRICK
A
C
14
A
O2
C
14
1_555
A
G
21
A
N2
G
21
1_555
hydrog
WATSON-CRICK
A
G
15
A
N1
G
15
1_555
A
C
20
A
N3
C
20
1_555
hydrog
WATSON-CRICK
A
G
15
A
N2
G
15
1_555
A
C
20
A
O2
C
20
1_555
hydrog
WATSON-CRICK
A
G
15
A
O6
G
15
1_555
A
C
20
A
N4
C
20
1_555
hydrog
G-G MISPAIR
A
G
15
A
N1
G
15
1_555
A
G
21
A
N3
G
21
1_555
hydrog
TYPE_11_PAIR
A
G
16
A
N2
G
16
1_555
A
A
19
A
N7
A
19
1_555
hydrog
TYPE_11_PAIR
A
G
16
A
N3
G
16
1_555
A
A
19
A
N6
A
19
1_555
hydrog
HOOGSTEEN
A
U
23
A
N3
U
23
1_555
A
A
26
A
N7
A
26
1_555
hydrog
HOOGSTEEN
A
U
23
A
O4
U
23
1_555
A
A
26
A
N6
A
26
1_555
RNA
RNA-LIGANDS COMPLEX, BASE TRIPLE, RNA APTAMER, HIV TAT, RNA
1NBK
PDB
1
1NBK
1
34
1NBK
1
34
1NBK
A
1
1
34
BINDING SITE FOR RESIDUE GND A 35
A
GND
35
Software
6
BINDING SITE FOR RESIDUE GND A 36
A
GND
36
Software
7
A
C
6
A
C
6
6
1_555
A
U
7
A
U
7
6
1_555
A
G
9
A
G
9
6
1_555
A
U
27
A
U
27
6
1_555
A
C
28
A
C
28
6
1_555
A
G
29
A
G
29
6
1_555
A
U
7
A
U
7
7
1_555
A
A
10
A
A
10
7
1_555
A
U
11
A
U
11
7
1_555
A
C
12
A
C
12
7
1_555
A
G
22
A
G
22
7
1_555
A
U
23
A
U
23
7
1_555
A
G
25
A
G
25
7
1_555