1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Nielsen, J.T.
Stein, P.C.
Petersen, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C11 H15 N2 O9 P
350.219
n
[(1S,3R,4S,7R)-7-HYDROXY-3-(THYMIN-1-YL)-2,5-DIOXABICYCLO[2.2.1]HEPT-1-YL]METHYL DIHYDROGEN PHOSPHATE
RNA linking
C9 H14 N3 O8 P
323.197
y
CYTIDINE-5'-MONOPHOSPHATE
RNA linking
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA 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
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
31
5858
10.1093/NAR/GKG800
14530434
NMR Structure of an Alpha-L-Lna:RNA Hybrid: Structural Implications for Rnase H Recognition
2003
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
ALPHA-L-LNA THYMINE MODIFICATIONS AT POSITIONS 2,5 AND 7
2814.843
5'-D(*CP*ATLP*GP*AP*ATLP*AP*ATLP*GP*CP)-3'
1
syn
polymer
2855.767
5'-R(*GP*CP*AP*UP*AP*UP*CP*AP*GP)-3'
1
syn
polymer
ALPHA-L-LNA
no
yes
(DC)(ATL)(DG)(DA)(ATL)(DA)(ATL)(DG)(DC)
CTGATATGC
A
polydeoxyribonucleotide
no
no
GCAUAUCAG
GCAUAUCAG
B
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
14.493
1
19
A
1
B
18
-5.479
A_DC1:G18_B
1
-15.562
0.558
0.232
-0.133
21.798
1
20
A
2
B
17
-2.955
A_ATL2:A17_B
2
-23.314
0.068
-0.147
0.141
-3.199
1
19
A
3
B
16
-2.449
A_DG3:C16_B
3
-20.581
-0.433
-0.092
-0.099
9.815
1
20
A
4
B
15
-5.359
A_DA4:U15_B
4
-17.290
-0.183
0.020
0.019
14.606
1
20
A
5
B
14
-9.379
A_ATL5:A14_B
5
-13.369
-0.597
0.223
0.117
3.304
1
20
A
6
B
13
-1.960
A_DA6:U13_B
6
-21.916
0.117
0.196
0.101
5.773
1
20
A
7
B
12
-8.352
A_ATL7:A12_B
7
-19.842
-0.353
0.287
0.052
-2.258
1
19
A
8
B
11
-0.983
A_DG8:C11_B
8
-11.517
-0.445
0.588
-0.053
14.631
1
19
A
9
B
10
-4.150
A_DC9:G10_B
9
-7.584
0.540
0.249
-0.053
2.934
21.892
A
A
1
2
8.376
B
B
18
17
3.112
3.161
-0.470
-1.265
AA_DC1ATL2:A17G18_BB
1
-2.876
7.621
21.476
-4.478
0.195
2.233
41.396
A
A
2
3
35.769
B
B
17
16
3.429
23.707
-0.786
-1.240
AA_ATL2DG3:C16A17_BB
2
-7.357
11.100
33.393
-4.212
0.349
2.867
35.113
A
A
3
4
5.783
B
B
16
15
2.930
3.483
-0.379
-0.401
AA_DG3DA4:U15C16_BB
3
0.901
-1.497
34.934
-1.127
0.748
3.041
26.847
A
A
4
5
1.436
B
B
15
14
3.162
0.663
0.252
-1.347
AA_DA4ATL5:A14U15_BB
4
-4.621
10.003
26.446
-3.064
-1.680
3.029
42.798
A
A
5
6
14.165
B
B
14
13
3.308
10.239
-0.154
-0.851
AA_ATL5DA6:U13A14_BB
5
-2.799
3.873
41.520
-2.173
-0.065
3.114
29.099
A
A
6
7
-0.625
B
B
13
12
3.123
-0.314
0.182
-1.530
AA_DA6ATL7:A12U13_BB
6
-2.413
4.809
28.999
-2.979
-0.867
2.577
39.254
A
A
7
8
15.258
B
B
12
11
3.069
10.097
-0.032
-1.452
AA_ATL7DG8:C11A12_BB
7
-6.541
9.884
37.434
-3.228
-0.642
3.035
33.271
A
A
8
9
-0.756
B
B
11
10
3.027
-0.433
-0.045
-0.944
AA_DG8DC9:G10C11_BB
8
1.190
-2.079
33.248
-1.582
0.263
repository
Initial release
Version format compliance
Version format compliance
1
0
2003-10-09
1
1
2011-05-08
1
2
2011-07-13
PDBE
Y
PDBE
2003-07-23
REL
THE STRUCTURE WAS DETERMINED USING 1H,1H-NOES FROM NOESY AND WATERGATE NOESY EXPERIMENTS
20
20
NOESY
COSY
100 MM NACL
7.0
pH
1
atm
298
K
REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE
simulated annealing
16
3 MM NUCLEIC ACID, 100 MM NACL, 10 MM PHOSPHATE BUFFER
PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM, FERGUSON, SEIBEL,SINGH,WEINER,KOLLMAN
refinement
AMBER
structure solution
FELIX
structure solution
AMBER
800
Varian
INOVA
DC
1
n
1
DC
1
A
ATL
2
n
2
ATL
2
A
DG
3
n
3
DG
3
A
DA
4
n
4
DA
4
A
ATL
5
n
5
ATL
5
A
DA
6
n
6
DA
6
A
ATL
7
n
7
ATL
7
A
DG
8
n
8
DG
8
A
DC
9
n
9
DC
9
A
G
10
n
1
G
10
B
C
11
n
2
C
11
B
A
12
n
3
A
12
B
U
13
n
4
U
13
B
A
14
n
5
A
14
B
U
15
n
6
U
15
B
C
16
n
7
C
16
B
A
17
n
8
A
17
B
G
18
n
9
G
18
B
author_defined_assembly
2
dimeric
A
ATL
2
A
ATL
2
DT
A
ATL
5
A
ATL
5
DT
A
ATL
7
A
ATL
7
DT
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
DC
1
0.082
SIDE CHAIN
1
B
A
17
0.112
SIDE CHAIN
2
A
DC
1
0.082
SIDE CHAIN
2
B
A
17
0.121
SIDE CHAIN
3
A
DC
1
0.072
SIDE CHAIN
3
A
DC
9
0.065
SIDE CHAIN
3
B
A
17
0.102
SIDE CHAIN
4
A
DC
1
0.073
SIDE CHAIN
4
B
A
17
0.103
SIDE CHAIN
5
A
DC
1
0.089
SIDE CHAIN
5
B
A
17
0.118
SIDE CHAIN
6
A
DC
1
0.070
SIDE CHAIN
6
B
A
17
0.101
SIDE CHAIN
7
A
DC
1
0.066
SIDE CHAIN
7
B
A
17
0.105
SIDE CHAIN
8
A
DC
1
0.080
SIDE CHAIN
8
B
A
17
0.102
SIDE CHAIN
9
A
DC
1
0.069
SIDE CHAIN
9
B
A
17
0.109
SIDE CHAIN
10
A
DC
1
0.069
SIDE CHAIN
10
B
A
17
0.103
SIDE CHAIN
11
A
DC
1
0.091
SIDE CHAIN
11
B
A
17
0.114
SIDE CHAIN
11
B
G
18
0.048
SIDE CHAIN
12
A
DC
1
0.063
SIDE CHAIN
12
B
A
17
0.109
SIDE CHAIN
13
A
DC
1
0.080
SIDE CHAIN
13
B
A
17
0.108
SIDE CHAIN
14
A
DC
1
0.078
SIDE CHAIN
14
A
DG
3
0.067
SIDE CHAIN
14
B
A
17
0.120
SIDE CHAIN
15
A
DC
1
0.068
SIDE CHAIN
15
B
A
17
0.110
SIDE CHAIN
16
A
DC
1
0.083
SIDE CHAIN
16
B
A
17
0.114
SIDE CHAIN
17
A
DC
1
0.076
SIDE CHAIN
17
B
A
17
0.094
SIDE CHAIN
17
B
G
18
0.062
SIDE CHAIN
18
A
DC
1
0.086
SIDE CHAIN
18
B
A
17
0.104
SIDE CHAIN
19
A
DC
1
0.062
SIDE CHAIN
19
B
A
17
0.109
SIDE CHAIN
20
A
DC
1
0.083
SIDE CHAIN
20
A
DC
9
0.057
SIDE CHAIN
20
B
A
17
0.118
SIDE CHAIN
1
4.54
0.60
106.00
110.54
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
1
2.35
0.30
108.30
110.65
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
1
3.63
0.30
108.30
111.93
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
4.19
0.60
106.00
110.19
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
1
8.24
1.20
102.50
110.74
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
1
3.11
0.30
108.30
111.41
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
1
2.35
0.30
108.30
110.65
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
5.13
0.70
108.50
113.63
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
1
6.01
0.90
109.80
115.81
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
1
4.77
0.70
108.50
113.27
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
1
5.91
0.80
101.50
107.41
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
1
4.43
0.70
108.50
112.93
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
1
6.14
0.70
108.50
114.64
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
2
4.79
0.60
106.00
110.79
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
2
1.88
0.30
108.30
110.18
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
2
4.84
0.30
108.30
113.14
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
2
4.75
0.60
106.00
110.75
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
2
8.37
1.20
102.50
110.87
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
2
3.08
0.30
108.30
111.38
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
2
3.19
0.30
108.30
111.49
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
2
4.97
0.70
108.50
113.47
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
2
6.05
0.90
109.80
115.85
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
2
4.55
0.70
108.50
113.05
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
2
5.48
0.80
101.50
106.98
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
2
5.95
0.70
108.50
114.45
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
3
4.32
0.60
106.00
110.32
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
3
4.15
0.30
108.30
112.45
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
3
4.43
0.60
106.00
110.43
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
3
8.48
1.20
102.50
110.98
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
3
2.31
0.30
108.30
110.61
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
3
4.51
0.70
108.50
113.01
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
3
4.85
0.70
108.50
113.35
B
B
B
O4'
C1'
N1
U
U
U
15
15
15
N
3
4.34
0.70
108.50
112.84
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
3
5.48
0.90
109.80
115.28
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
3
5.87
0.80
101.50
107.37
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
3
4.26
0.70
108.50
112.76
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
3
6.08
0.70
108.50
114.58
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
4
5.48
0.60
106.00
111.48
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
4
2.21
0.30
108.30
110.51
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
4
5.43
0.30
108.30
113.73
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
4
4.29
0.60
106.00
110.29
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
4
8.43
1.20
102.50
110.93
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
4
2.74
0.30
108.30
111.04
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
4
1.88
0.30
108.30
110.18
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
4
5.43
0.90
109.80
115.23
B
B
B
C5'
C4'
O4'
U
U
U
13
13
13
N
4
6.37
0.90
109.80
116.17
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
4
4.60
0.70
108.50
113.10
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
4
5.85
0.90
109.80
115.65
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
4
5.31
0.80
101.50
106.81
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
4
4.65
0.70
108.50
113.15
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
4
6.61
0.70
108.50
115.11
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
5
4.83
0.60
106.00
110.83
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
5
4.96
0.30
108.30
113.26
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
5
4.44
0.60
106.00
110.44
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
5
8.39
1.20
102.50
110.89
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
5
2.92
0.30
108.30
111.22
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
5
2.52
0.30
108.30
110.82
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
5
5.77
0.90
109.80
115.57
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
5
5.44
0.80
101.50
106.94
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
5
6.34
0.70
108.50
114.84
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
6
5.06
0.60
106.00
111.06
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
6
1.96
0.30
108.30
110.26
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
6
4.43
0.30
108.30
112.73
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
6
4.44
0.60
106.00
110.44
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
6
8.46
1.20
102.50
110.96
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
6
2.73
0.30
108.30
111.03
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
6
1.96
0.30
108.30
110.26
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
6
5.45
0.90
109.80
115.25
B
B
B
C5'
C4'
O4'
U
U
U
13
13
13
N
6
6.21
0.90
109.80
116.01
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
6
4.40
0.70
108.50
112.90
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
6
5.71
0.90
109.80
115.51
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
6
5.72
0.80
101.50
107.22
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
6
4.61
0.70
108.50
113.11
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
6
6.50
0.70
108.50
115.00
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
7
5.44
0.60
106.00
111.44
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
7
1.86
0.30
108.30
110.16
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
7
5.14
0.30
108.30
113.44
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
7
4.35
0.60
106.00
110.35
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
7
8.44
1.20
102.50
110.94
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
7
3.05
0.30
108.30
111.35
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
7
2.17
0.30
108.30
110.47
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
7
4.79
0.70
108.50
113.29
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
7
6.41
0.90
109.80
116.21
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
7
4.55
0.70
108.50
113.05
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
7
5.73
0.90
109.80
115.53
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
7
5.52
0.80
101.50
107.02
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
7
4.33
0.70
108.50
112.83
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
7
6.26
0.70
108.50
114.76
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
8
4.78
0.60
106.00
110.78
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
8
2.14
0.30
108.30
110.44
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
8
2.77
0.30
108.30
111.07
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
8
4.46
0.60
106.00
110.46
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
8
8.60
1.20
102.50
111.10
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
8
2.64
0.30
108.30
110.94
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
8
2.03
0.30
108.30
110.33
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
8
5.87
0.90
109.80
115.67
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
8
4.82
0.70
108.50
113.32
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
8
5.54
0.90
109.80
115.34
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
8
5.21
0.80
101.50
106.71
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
8
6.56
0.70
108.50
115.06
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
9
5.14
0.60
106.00
111.14
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
9
4.59
0.30
108.30
112.89
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
9
4.47
0.60
106.00
110.47
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
9
8.40
1.20
102.50
110.90
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
9
3.49
0.30
108.30
111.79
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
9
3.08
0.30
108.30
111.38
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
9
5.13
0.70
108.50
113.63
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
9
5.99
0.90
109.80
115.79
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
9
4.67
0.70
108.50
113.17
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
9
5.57
0.90
109.80
115.37
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
9
5.68
0.80
101.50
107.18
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
9
6.17
0.70
108.50
114.67
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
10
5.11
0.60
106.00
111.11
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
10
5.04
0.30
108.30
113.34
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
10
4.19
0.60
106.00
110.19
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
10
8.32
1.20
102.50
110.82
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
10
3.14
0.30
108.30
111.44
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
10
2.57
0.30
108.30
110.87
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
10
4.38
0.70
108.50
112.88
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
10
4.80
0.70
108.50
113.30
B
B
B
O4'
C1'
N1
U
U
U
15
15
15
N
10
4.81
0.70
108.50
113.31
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
10
5.69
0.90
109.80
115.49
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
10
5.80
0.80
101.50
107.30
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
10
4.80
0.70
108.50
113.30
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
10
6.61
0.70
108.50
115.11
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
11
4.95
0.60
106.00
110.95
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
11
1.88
0.30
108.30
110.18
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
11
4.00
0.30
108.30
112.30
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
11
4.60
0.60
106.00
110.60
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
11
8.50
1.20
102.50
111.00
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
11
3.17
0.30
108.30
111.47
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
11
2.43
0.30
108.30
110.73
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
11
5.92
0.90
109.80
115.72
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
11
4.45
0.70
108.50
112.95
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
11
5.83
0.80
101.50
107.33
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
11
4.27
0.70
108.50
112.77
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
11
6.29
0.70
108.50
114.79
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
12
5.39
0.60
106.00
111.39
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
12
1.80
0.30
108.30
110.10
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
12
5.38
0.30
108.30
113.68
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
12
4.41
0.60
106.00
110.41
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
12
8.29
1.20
102.50
110.79
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
12
3.39
0.30
108.30
111.69
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
12
3.27
0.30
108.30
111.57
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
12
5.41
0.90
109.80
115.21
B
B
B
C5'
C4'
O4'
U
U
U
13
13
13
N
12
6.39
0.90
109.80
116.19
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
12
4.67
0.70
108.50
113.17
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
12
5.82
0.90
109.80
115.62
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
12
5.79
0.80
101.50
107.29
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
12
4.38
0.70
108.50
112.88
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
12
6.23
0.70
108.50
114.73
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
13
4.72
0.60
106.00
110.72
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
13
2.18
0.30
108.30
110.48
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
13
4.40
0.30
108.30
112.70
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
13
4.35
0.60
106.00
110.35
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
13
8.43
1.20
102.50
110.93
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
13
2.97
0.30
108.30
111.27
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
13
2.24
0.30
108.30
110.54
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
13
4.67
0.70
108.50
113.17
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
13
5.77
0.90
109.80
115.57
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
13
4.59
0.70
108.50
113.09
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
13
5.46
0.90
109.80
115.26
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
13
5.46
0.80
101.50
106.96
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
13
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
13
6.36
0.70
108.50
114.86
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
14
4.53
0.60
106.00
110.53
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
14
4.54
0.30
108.30
112.84
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
14
4.39
0.60
106.00
110.39
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
14
8.36
1.20
102.50
110.86
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
14
3.45
0.30
108.30
111.75
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
14
3.01
0.30
108.30
111.31
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
14
4.97
0.70
108.50
113.47
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
14
5.49
0.90
109.80
115.29
B
B
B
C5'
C4'
O4'
U
U
U
13
13
13
N
14
5.90
0.90
109.80
115.70
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
14
5.76
0.80
101.50
107.26
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
14
6.23
0.70
108.50
114.73
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
15
5.03
0.60
106.00
111.03
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
15
1.82
0.30
108.30
110.12
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
15
4.74
0.30
108.30
113.04
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
15
4.41
0.60
106.00
110.41
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
15
8.44
1.20
102.50
110.94
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
15
2.93
0.30
108.30
111.23
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
15
2.18
0.30
108.30
110.48
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
15
4.22
0.70
108.50
112.72
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
15
5.42
0.90
109.80
115.22
B
B
B
C5'
C4'
O4'
U
U
U
13
13
13
N
15
6.01
0.90
109.80
115.81
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
15
4.65
0.70
108.50
113.15
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
15
5.65
0.90
109.80
115.45
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
15
5.77
0.80
101.50
107.27
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
15
6.12
0.70
108.50
114.62
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
16
4.66
0.60
106.00
110.66
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
16
2.23
0.30
108.30
110.53
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
16
4.66
0.30
108.30
112.96
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
16
4.46
0.60
106.00
110.46
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
16
8.54
1.20
102.50
111.04
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
16
2.78
0.30
108.30
111.08
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
16
2.18
0.30
108.30
110.48
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
16
5.90
0.90
109.80
115.70
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
16
4.41
0.70
108.50
112.91
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
16
5.91
0.80
101.50
107.41
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
16
6.17
0.70
108.50
114.67
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
17
5.31
0.60
106.00
111.31
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
17
2.04
0.30
108.30
110.34
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
17
5.41
0.30
108.30
113.71
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
17
4.64
0.60
106.00
110.64
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
17
8.43
1.20
102.50
110.93
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
17
3.31
0.30
108.30
111.61
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
17
2.76
0.30
108.30
111.06
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
17
4.75
0.70
108.50
113.25
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
17
6.16
0.90
109.80
115.96
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
17
4.33
0.70
108.50
112.83
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
17
5.07
0.70
108.50
113.57
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
17
8.18
0.70
108.50
116.68
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
18
5.46
0.60
106.00
111.46
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
18
2.17
0.30
108.30
110.47
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
18
5.59
0.30
108.30
113.89
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
18
4.32
0.60
106.00
110.32
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
18
8.25
1.20
102.50
110.75
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
18
2.99
0.30
108.30
111.29
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
18
2.43
0.30
108.30
110.73
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
18
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
18
6.42
0.90
109.80
116.22
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
18
4.50
0.70
108.50
113.00
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
18
5.65
0.90
109.80
115.45
B
B
B
C5'
C4'
O4'
A
A
A
17
17
17
N
18
5.15
0.80
101.50
106.65
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
18
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
18
6.46
0.70
108.50
114.96
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
19
5.41
0.60
106.00
111.41
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
19
1.87
0.30
108.30
110.17
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
19
4.00
0.30
108.30
112.30
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
19
4.38
0.60
106.00
110.38
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
19
8.14
1.20
102.50
110.64
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
19
2.94
0.30
108.30
111.24
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
19
2.53
0.30
108.30
110.83
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
19
4.65
0.70
108.50
113.15
B
B
B
O4'
C1'
N1
C
C
C
11
11
11
N
19
6.31
0.90
109.80
116.11
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
19
4.29
0.70
108.50
112.79
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
19
5.35
0.80
101.50
106.85
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
19
4.34
0.70
108.50
112.84
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
19
6.48
0.70
108.50
114.98
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
20
4.94
0.60
106.00
110.94
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
20
4.81
0.30
108.30
113.11
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
20
4.37
0.60
106.00
110.37
A
A
A
O4'
C4'
C3'
DG
DG
DG
8
8
8
N
20
8.24
1.20
102.50
110.74
A
A
A
C3'
C2'
C1'
DG
DG
DG
8
8
8
N
20
2.24
0.30
108.30
110.54
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
20
1.99
0.30
108.30
110.29
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
20
6.26
0.90
109.80
116.06
B
B
B
C5'
C4'
O4'
U
U
U
15
15
15
N
20
4.24
0.70
108.50
112.74
B
B
B
O4'
C1'
N1
C
C
C
16
16
16
N
20
5.90
0.80
101.50
107.40
B
B
B
C3'
C2'
C1'
A
A
A
17
17
17
N
20
4.29
0.70
108.50
112.79
B
B
B
O4'
C1'
N9
A
A
A
17
17
17
N
20
6.22
0.70
108.50
114.72
B
B
B
O4'
C1'
N9
G
G
G
18
18
18
N
1
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
2
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
3
A
A
C5'
C4'
DA
DA
4
4
0.063
0.007
1.512
1.575
N
4
A
A
C5'
C4'
DA
DA
4
4
0.060
0.007
1.512
1.572
N
5
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
6
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
7
A
A
C5'
C4'
DA
DA
4
4
0.060
0.007
1.512
1.572
N
8
A
A
C5'
C4'
DA
DA
4
4
0.063
0.007
1.512
1.575
N
9
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
10
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
11
A
A
C5'
C4'
DA
DA
4
4
0.063
0.007
1.512
1.575
N
12
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
13
A
A
C5'
C4'
DA
DA
4
4
0.063
0.007
1.512
1.575
N
14
A
A
C5'
C4'
DA
DA
4
4
0.058
0.007
1.512
1.570
N
15
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
16
A
A
C5'
C4'
DA
DA
4
4
0.063
0.007
1.512
1.575
N
17
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
18
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
19
A
A
C5'
C4'
DA
DA
4
4
0.062
0.007
1.512
1.574
N
20
A
A
C5'
C4'
DA
DA
4
4
0.061
0.007
1.512
1.573
N
5'-D(*C)-R(P*(ATL))-D(P*GP*A)-R(P*(ATL))-D(P*A)-R(P*(ATL))-D(P*GP*C)-3'
NMR structure of an alpha-L-LNA:RNA hybrid
1
N
N
2
N
N
covale
1.617
A
DC
1
A
O3'
DC
1
1_555
A
ATL
2
A
P
ATL
2
1_555
covale
1.605
A
ATL
2
A
O3'
ATL
2
1_555
A
DG
3
A
P
DG
3
1_555
covale
1.628
A
DA
4
A
O3'
DA
4
1_555
A
ATL
5
A
P
ATL
5
1_555
covale
1.619
A
ATL
5
A
O3'
ATL
5
1_555
A
DA
6
A
P
DA
6
1_555
covale
1.622
A
DA
6
A
O3'
DA
6
1_555
A
ATL
7
A
P
ATL
7
1_555
covale
1.627
A
ATL
7
A
O3'
ATL
7
1_555
A
DG
8
A
P
DG
8
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
G
18
B
N1
G
9
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
G
18
B
O6
G
9
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
G
18
B
N2
G
9
1_555
hydrog
WATSON-CRICK
A
ATL
2
A
N3
ATL
2
1_555
B
A
17
B
N1
A
8
1_555
hydrog
WATSON-CRICK
A
ATL
2
A
O4
ATL
2
1_555
B
A
17
B
N6
A
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
C
16
B
N3
C
7
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
C
16
B
O2
C
7
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
C
16
B
N4
C
7
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
B
U
15
B
N3
U
6
1_555
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
B
U
15
B
O4
U
6
1_555
hydrog
WATSON-CRICK
A
ATL
5
A
N3
ATL
5
1_555
B
A
14
B
N1
A
5
1_555
hydrog
WATSON-CRICK
A
ATL
5
A
O4
ATL
5
1_555
B
A
14
B
N6
A
5
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
U
13
B
N3
U
4
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
U
13
B
O4
U
4
1_555
hydrog
WATSON-CRICK
A
ATL
7
A
N3
ATL
7
1_555
B
A
12
B
N1
A
3
1_555
hydrog
WATSON-CRICK
A
ATL
7
A
O4
ATL
7
1_555
B
A
12
B
N6
A
3
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N1
DG
8
1_555
B
C
11
B
N3
C
2
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N2
DG
8
1_555
B
C
11
B
O2
C
2
1_555
hydrog
WATSON-CRICK
A
DG
8
A
O6
DG
8
1_555
B
C
11
B
N4
C
2
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
G
10
B
N1
G
1
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
G
10
B
O6
G
1
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
G
10
B
N2
G
1
1_555
DNA-RNA HYBRID
DNA-RNA HYBRID, DNA/RNA HYBRID, ALPHA-L-LNA, LNA, RNA, RNASE H, LOCKED NUCLEIC ACID
1OKF
PDB
1
1OKF
1OKF
PDB
2
1OKF
1
9
1OKF
1
9
1OKF
A
1
1
9
10
18
1OKF
10
18
1OKF
B
2
1
9
1
P 1