1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Chen, G.
Znosko, B.M.
Kennedy, S.D.
Krugh, T.R.
Turner, D.H.
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
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
C10 H13 N4 O7 P
332.207
n
PURINE RIBOSIDE-5'-MONOPHOSPHATE
RNA linking
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
US
Biochemistry
BICHAW
0033
0006-2960
44
2845
2856
10.1021/bi048079y
15723528
Solution Structure of an RNA Internal Loop with Three Consecutive Sheared GA Pairs
2005
10.2210/pdb1xv0/pdb
pdb_00001xv0
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
3272.996
5'-R(*GP*GP*UP*GP*GP*AP*GP*GP*CP*U)-3'
1
syn
polymer
3183.991
5'-R(*GP*CP*CP*GP*AP*AP*GP*CP*CP*(P5P)-3'
1
syn
polymer
no
no
GGUGGAGGCU
GGUGGAGGCU
A
polyribonucleotide
no
yes
GCCGAAGCC(P5P)
GCCGAAGCCA
B
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-10.570
1
19
A
1
B
19
-0.668
A_G1:C19_B
1
-10.606
-0.686
-0.231
-0.188
-11.736
1
19
A
2
B
18
0.658
A_G2:C18_B
2
-14.339
-0.315
-0.211
-0.036
-5.534
1
28
A
3
B
17
5.074
A_U3:G17_B
3
-12.996
2.176
0.126
-0.299
-4.687
10
11
A
4
B
16
-5.895
A_G4:A16_B
4
-10.432
6.887
-0.494
-4.109
2.490
10
11
B
14
A
6
-6.916
B_G14:A6_A
5
-8.033
6.873
0.168
-4.451
-3.759
1
19
B
13
A
7
0.970
B_C13:G7_A
6
-7.189
0.559
-0.080
-0.107
-10.940
1
19
B
12
A
8
-0.142
B_C12:G8_A
7
-7.267
0.620
0.023
-0.133
-16.916
1
19
B
11
A
9
1.003
B_G11:C9_A
8
-12.732
-0.700
-0.438
-0.151
3.022
32.807
A
A
1
2
9.847
B
B
19
18
3.334
5.535
0.121
-1.640
AA_G1G2:C18C19_BB
1
1.184
-2.107
32.328
-3.835
-0.015
3.130
41.044
A
A
2
3
2.742
B
B
18
17
3.187
1.922
0.501
-1.251
AA_G2U3:G17C18_BB
2
0.220
-0.315
41.000
-1.986
-0.692
3.331
57.103
A
A
3
4
0.750
B
B
17
16
3.501
0.715
-0.983
-0.996
AA_U3G4:A16G17_BB
3
8.111
-8.509
56.568
-1.083
1.497
-0.229
-179.539
A
B
4
14
-27.821
B
A
16
6
0.042
55.633
-0.101
7.267
AB_G4G14:A6A16_AB
4
167.246
83.637
-165.854
-3.632
-0.056
-3.098
-53.938
B
B
14
13
8.480
A
A
6
7
-3.299
-7.666
0.370
1.144
BB_G14C13:G7A6_AA
5
-2.755
-3.048
-53.365
-1.728
0.575
-2.815
-29.452
B
B
13
12
9.078
A
A
7
8
-3.112
-4.592
-0.206
1.746
BB_C13C12:G8G7_AA
6
-2.430
-4.803
-29.001
-4.331
0.070
-3.107
-36.191
B
B
12
11
2.475
A
A
8
9
-3.179
-1.537
0.046
1.696
BB_C12G11:C9G8_AA
7
0.472
0.760
-36.157
-2.939
0.010
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2004-11-09
1
1
2008-04-30
1
2
2011-07-13
1
3
2022-03-02
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_struct_conn.pdbx_leaving_atom_flag
RCSB
Y
RCSB
2004-10-26
REL
structures with the least restraint violations
40
33
2D TOCSY
2D NOESY
DQF-COSY
2D NOESY
5.9
1
atm
303
K
5.9
1
atm
273
K
17
closest to the average
80 mM NaCl, 10 mM Sodium phosphates, 0.5 mM EDTA, pH5.9
10% D2O
NMR
data analysis
Felix
2000
structure solution
Discover
refinement
Discover
structure solution
Amber
500
Varian
INOVA
600
Varian
INOVA
G
1
n
1
G
1
A
G
2
n
2
G
2
A
U
3
n
3
U
3
A
G
4
n
4
G
4
A
G
5
n
5
G
5
A
A
6
n
6
A
6
A
G
7
n
7
G
7
A
G
8
n
8
G
8
A
C
9
n
9
C
9
A
U
10
n
10
U
10
A
G
11
n
1
G
11
B
C
12
n
2
C
12
B
C
13
n
3
C
13
B
G
14
n
4
G
14
B
A
15
n
5
A
15
B
A
16
n
6
A
16
B
G
17
n
7
G
17
B
C
18
n
8
C
18
B
C
19
n
9
C
19
B
P5P
20
n
10
P5P
20
B
author_defined_assembly
2
dimeric
B
P5P
20
PURINE RIBOSIDE-5'-MONOPHOSPHATE
B
P5P
10
A
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
G
4
0.057
SIDE CHAIN
1
A
G
5
0.057
SIDE CHAIN
2
A
G
5
0.055
SIDE CHAIN
2
B
A
16
0.083
SIDE CHAIN
3
A
G
5
0.055
SIDE CHAIN
3
B
A
16
0.083
SIDE CHAIN
4
B
A
16
0.051
SIDE CHAIN
5
A
G
5
0.063
SIDE CHAIN
6
A
G
5
0.061
SIDE CHAIN
7
A
G
5
0.060
SIDE CHAIN
7
B
A
16
0.082
SIDE CHAIN
8
B
A
16
0.059
SIDE CHAIN
10
A
G
5
0.063
SIDE CHAIN
10
B
G
14
0.075
SIDE CHAIN
10
B
A
16
0.069
SIDE CHAIN
10
B
G
17
0.055
SIDE CHAIN
11
A
G
5
0.086
SIDE CHAIN
11
B
A
16
0.059
SIDE CHAIN
11
B
G
17
0.064
SIDE CHAIN
13
A
G
5
0.059
SIDE CHAIN
16
B
A
16
0.052
SIDE CHAIN
17
A
G
5
0.066
SIDE CHAIN
17
B
G
11
0.057
SIDE CHAIN
18
B
A
16
0.061
SIDE CHAIN
22
A
G
5
0.049
SIDE CHAIN
22
B
G
11
0.056
SIDE CHAIN
22
B
A
15
0.050
SIDE CHAIN
23
B
G
11
0.056
SIDE CHAIN
23
B
G
14
0.055
SIDE CHAIN
23
B
A
16
0.063
SIDE CHAIN
24
A
G
5
0.072
SIDE CHAIN
24
B
G
11
0.058
SIDE CHAIN
26
A
G
5
0.059
SIDE CHAIN
26
B
G
14
0.056
SIDE CHAIN
26
B
A
16
0.067
SIDE CHAIN
29
B
G
11
0.060
SIDE CHAIN
29
B
A
16
0.050
SIDE CHAIN
30
A
G
5
0.079
SIDE CHAIN
30
B
G
14
0.065
SIDE CHAIN
31
A
G
5
0.052
SIDE CHAIN
31
B
A
16
0.062
SIDE CHAIN
32
A
G
5
0.092
SIDE CHAIN
33
A
G
5
0.099
SIDE CHAIN
33
B
A
15
0.058
SIDE CHAIN
1
5.70
0.70
108.50
114.20
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
1
5.08
0.70
108.50
113.58
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
1
4.59
0.70
108.50
113.09
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
1
4.70
0.70
108.50
113.20
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
1
4.76
0.70
108.50
113.26
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
2
4.23
0.70
108.50
112.73
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
2
5.84
0.70
108.50
114.34
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
2
5.05
0.70
108.50
113.55
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
2
4.44
0.70
108.50
112.94
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
2
4.89
0.70
108.50
113.39
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
2
4.22
0.70
108.50
112.72
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
3
4.21
0.70
108.50
112.71
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
3
5.84
0.70
108.50
114.34
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
3
4.99
0.70
108.50
113.49
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
3
4.43
0.70
108.50
112.93
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
3
4.91
0.70
108.50
113.41
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
3
4.25
0.70
108.50
112.75
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
4
5.58
0.70
108.50
114.08
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
4
5.03
0.70
108.50
113.53
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
4
4.55
0.70
108.50
113.05
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
4
5.10
0.70
108.50
113.60
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
5
5.60
0.70
108.50
114.10
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
5
5.05
0.70
108.50
113.55
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
5
4.41
0.70
108.50
112.91
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
5
4.74
0.70
108.50
113.24
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
6
5.42
0.70
108.50
113.92
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
6
5.12
0.70
108.50
113.62
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
6
4.54
0.70
108.50
113.04
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
6
5.54
0.70
108.50
114.04
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
6
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
7
5.60
0.70
108.50
114.10
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
7
4.97
0.70
108.50
113.47
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
7
4.42
0.70
108.50
112.92
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
7
4.73
0.70
108.50
113.23
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
8
4.22
0.70
108.50
112.72
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
8
5.96
0.70
108.50
114.46
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
8
5.14
0.70
108.50
113.64
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
8
4.69
0.70
108.50
113.19
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
8
5.25
0.70
108.50
113.75
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
8
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
9
5.48
0.70
108.50
113.98
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
9
4.98
0.70
108.50
113.48
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
9
4.41
0.70
108.50
112.91
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
9
5.48
0.70
108.50
113.98
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
10
5.28
0.70
108.50
113.78
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
10
5.11
0.70
108.50
113.61
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
10
4.38
0.70
108.50
112.88
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
10
4.91
0.70
108.50
113.41
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
11
5.48
0.70
108.50
113.98
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
11
5.15
0.70
108.50
113.65
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
11
4.52
0.70
108.50
113.02
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
11
5.30
0.70
108.50
113.80
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
12
5.69
0.70
108.50
114.19
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
12
4.27
0.70
108.50
112.77
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
12
4.38
0.70
108.50
112.88
A
A
A
O4'
C1'
N1
U
U
U
10
10
10
N
12
4.70
0.70
108.50
113.20
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
12
4.46
0.70
108.50
112.96
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
13
4.28
0.70
108.50
112.78
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
13
5.66
0.70
108.50
114.16
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
13
5.03
0.70
108.50
113.53
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
13
4.52
0.70
108.50
113.02
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
13
5.14
0.70
108.50
113.64
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
14
5.79
0.70
108.50
114.29
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
14
7.47
1.20
119.70
127.17
A
A
A
C3'
O3'
P
G
G
G
4
4
5
Y
14
4.99
0.70
108.50
113.49
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
14
4.47
0.70
108.50
112.97
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
14
4.48
0.70
108.50
112.98
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
15
5.67
0.70
108.50
114.17
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
15
4.85
0.70
108.50
113.35
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
15
4.59
0.70
108.50
113.09
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
15
4.56
0.70
108.50
113.06
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
16
5.93
0.70
108.50
114.43
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
16
4.93
0.70
108.50
113.43
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
16
4.45
0.70
108.50
112.95
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
16
4.60
0.70
108.50
113.10
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
17
5.58
0.70
108.50
114.08
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
17
4.37
0.70
108.50
112.87
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
17
4.43
0.70
108.50
112.93
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
17
4.97
0.70
108.50
113.47
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
18
5.91
0.70
108.50
114.41
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
18
7.49
1.20
119.70
127.19
A
A
A
C3'
O3'
P
G
G
G
4
4
5
Y
18
5.10
0.70
108.50
113.60
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
18
4.52
0.70
108.50
113.02
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
18
5.62
0.70
108.50
114.12
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
18
4.29
0.70
108.50
112.79
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
19
5.53
0.70
108.50
114.03
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
19
4.78
0.70
108.50
113.28
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
19
4.57
0.70
108.50
113.07
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
19
4.41
0.70
108.50
112.91
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
20
4.48
0.70
108.50
112.98
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
20
5.84
0.70
108.50
114.34
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
20
4.88
0.70
108.50
113.38
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
20
4.50
0.70
108.50
113.00
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
20
5.13
0.70
108.50
113.63
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
20
4.39
0.70
108.50
112.89
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
21
5.82
0.70
108.50
114.32
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
21
4.23
0.70
108.50
112.73
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
21
4.62
0.70
108.50
113.12
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
21
4.30
0.70
108.50
112.80
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
22
5.92
0.70
108.50
114.42
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
22
4.34
0.70
108.50
112.84
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
22
4.51
0.70
108.50
113.01
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
22
4.99
0.70
108.50
113.49
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
22
4.30
0.70
108.50
112.80
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
23
5.89
0.70
108.50
114.39
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
23
4.31
0.70
108.50
112.81
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
23
4.50
0.70
108.50
113.00
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
23
4.65
0.70
108.50
113.15
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
24
5.39
0.70
108.50
113.89
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
24
4.49
0.70
108.50
112.99
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
24
4.57
0.70
108.50
113.07
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
25
5.77
0.70
108.50
114.27
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
25
4.93
0.70
108.50
113.43
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
25
5.13
0.70
108.50
113.63
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
25
5.15
0.70
108.50
113.65
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
25
4.23
0.70
108.50
112.73
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
26
5.72
0.70
108.50
114.22
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
26
4.65
0.70
108.50
113.15
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
26
4.50
0.70
108.50
113.00
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
26
4.76
0.70
108.50
113.26
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
27
5.60
0.70
108.50
114.10
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
27
4.92
0.70
108.50
113.42
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
27
4.45
0.70
108.50
112.95
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
27
4.58
0.70
108.50
113.08
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
28
5.52
0.70
108.50
114.02
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
28
5.04
0.70
108.50
113.54
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
28
4.59
0.70
108.50
113.09
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
28
5.07
0.70
108.50
113.57
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
28
4.21
0.70
108.50
112.71
B
B
B
O4'
C1'
N1
C
C
C
19
19
19
N
29
5.63
0.70
108.50
114.13
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
29
4.24
0.70
108.50
112.74
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
29
4.36
0.70
108.50
112.86
A
A
A
O4'
C1'
N1
U
U
U
10
10
10
N
29
4.40
0.70
108.50
112.90
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
29
4.95
0.70
108.50
113.45
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
30
5.67
0.70
108.50
114.17
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
30
4.80
0.70
108.50
113.30
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
30
4.43
0.70
108.50
112.93
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
30
4.68
0.70
108.50
113.18
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
31
4.26
0.70
108.50
112.76
A
A
A
O4'
C1'
N9
G
G
G
2
2
2
N
31
5.88
0.70
108.50
114.38
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
31
5.06
0.70
108.50
113.56
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
31
4.53
0.70
108.50
113.03
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
31
5.18
0.70
108.50
113.68
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
32
5.52
0.70
108.50
114.02
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
32
4.75
0.70
108.50
113.25
A
A
A
O4'
C1'
N9
G
G
G
7
7
7
N
32
5.10
0.70
108.50
113.60
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
32
4.65
0.70
108.50
113.15
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
32
4.49
0.70
108.50
112.99
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
33
5.94
0.70
108.50
114.44
A
A
A
O4'
C1'
N1
U
U
U
3
3
3
N
33
4.96
0.70
108.50
113.46
A
A
A
O4'
C1'
N1
C
C
C
9
9
9
N
33
4.35
0.70
108.50
112.85
B
B
B
O4'
C1'
N1
C
C
C
12
12
12
N
33
4.95
0.70
108.50
113.45
B
B
B
O4'
C1'
N1
C
C
C
13
13
13
N
Solution NMR structure of RNA internal loop with three consecutive sheared GA pairs in 5'GGUGGAGGCU/3'PCCGAAGCCG
1
N
N
2
N
N
covale
1.614
both
B
C
19
B
O3'
C
9
1_555
B
P5P
20
B
P
P5P
10
1_555
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
B
C
19
B
N3
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
B
C
19
B
O2
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
B
C
19
B
N4
C
9
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
B
C
18
B
N3
C
8
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
B
C
18
B
O2
C
8
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
B
C
18
B
N4
C
8
1_555
hydrog
TYPE_28_PAIR
A
U
3
A
N3
U
3
1_555
B
G
17
B
O6
G
7
1_555
hydrog
TYPE_28_PAIR
A
U
3
A
O2
U
3
1_555
B
G
17
B
N1
G
7
1_555
hydrog
TYPE_11_PAIR
A
G
4
A
N2
G
4
1_555
B
A
16
B
N7
A
6
1_555
hydrog
TYPE_11_PAIR
A
G
4
A
N3
G
4
1_555
B
A
16
B
N6
A
6
1_555
hydrog
TYPE_11_PAIR
A
A
6
A
N6
A
6
1_555
B
G
14
B
N3
G
4
1_555
hydrog
TYPE_11_PAIR
A
A
6
A
N7
A
6
1_555
B
G
14
B
N2
G
4
1_555
hydrog
WATSON-CRICK
A
G
7
A
N1
G
7
1_555
B
C
13
B
N3
C
3
1_555
hydrog
WATSON-CRICK
A
G
7
A
N2
G
7
1_555
B
C
13
B
O2
C
3
1_555
hydrog
WATSON-CRICK
A
G
7
A
O6
G
7
1_555
B
C
13
B
N4
C
3
1_555
hydrog
WATSON-CRICK
A
G
8
A
N1
G
8
1_555
B
C
12
B
N3
C
2
1_555
hydrog
WATSON-CRICK
A
G
8
A
N2
G
8
1_555
B
C
12
B
O2
C
2
1_555
hydrog
WATSON-CRICK
A
G
8
A
O6
G
8
1_555
B
C
12
B
N4
C
2
1_555
hydrog
WATSON-CRICK
A
C
9
A
N3
C
9
1_555
B
G
11
B
N1
G
1
1_555
hydrog
WATSON-CRICK
A
C
9
A
N4
C
9
1_555
B
G
11
B
O6
G
1
1_555
hydrog
WATSON-CRICK
A
C
9
A
O2
C
9
1_555
B
G
11
B
N2
G
1
1_555
RNA
Thermodynamics and Structure, Base stacking and Hydrogen bonding, 3-GA motif, RNA
1XV0
PDB
1
1XV0
1XV0
PDB
2
1XV0
1
10
1XV0
1
10
1XV0
A
1
1
10
11
20
1XV0
11
20
1XV0
B
2
1
10
1
P 1