1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Kitamura, Y.
Muto, Y.
Watanabe, S.
Kim, I.
Ito, T.
Nishiya, Y.
Sakamoto, K.
Ohtsuki, T.
Kawai, G.
Watanabe, K.
Hosono, K.
Takaku, H.
Katoh, E.
Yamazaki, T.
Inoue, T.
Yokoyama, S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
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
UK
RNA
RNARFU
2122
1355-8382
8
440
451
10.1017/S1355838202026043
11991639
Solution structure of an RNA fragment with the P7/P9.0 region and the 3'-terminal guanosine of the tetrahymena group I intron.
2002
10.2210/pdb1k2g/pdb
pdb_00001k2g
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
P7-P9.0 DOMAIN OF RNA GROUP I INTRON
7113.291
5'-R(*CP*AP*GP*AP*CP*UP*UP*CP*GP*GP*UP*CP*GP*CP*AP*GP*AP*GP*AP*UP*GP*G)-3'
1
syn
polymer
no
no
CAGACUUCGGUCGCAGAGAUGG
CAGACUUCGGUCGCAGAGAUGG
A
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1.514
A
9
A
6
83.904
A_G9:U6_A
1
5.036
-1.834
0.585
4.362
0.800
1
19
A
10
A
5
-1.888
A_G10:C5_A
2
3.196
-0.748
-0.291
-0.494
11.072
1
20
A
11
A
4
4.724
A_U11:A4_A
3
-10.532
0.023
-0.710
-0.368
3.825
1
19
A
12
A
3
0.442
A_C12:G3_A
4
-6.797
0.525
-0.320
-0.403
-9.106
1
19
A
13
A
1
9.972
A_G13:C1_A
5
19.472
-0.866
0.053
-0.305
25.009
1
19
A
14
A
21
0.255
A_C14:G21_A
6
-10.867
0.344
-0.690
-0.353
12.472
1
20
A
15
A
20
-5.303
A_A15:U20_A
7
8.649
0.480
-0.226
-0.003
14.904
10
11
A
16
A
19
-17.847
A_G16:A19_A
8
11.650
6.293
-1.260
-4.893
0.606
165.805
A
A
9
10
-62.190
A
A
6
5
-1.344
-116.724
-1.462
-2.876
AA_G9G10:C5U6_AA
1
117.030
-62.353
30.338
-1.649
0.536
2.843
34.848
A
A
10
11
3.700
A
A
5
4
3.005
2.215
-0.514
-2.324
AA_G10U11:A4C5_AA
2
0.860
-1.437
34.770
-4.182
0.975
3.251
36.280
A
A
11
12
10.965
A
A
4
3
3.574
6.767
1.295
-2.266
AA_U11C12:G3A4_AA
3
5.243
-8.495
35.288
-4.641
-1.302
2.855
49.355
A
A
12
13
20.441
A
A
3
1
3.800
16.725
2.953
-1.103
AA_C12G13:C1G3_AA
4
-6.399
7.821
46.182
-2.637
-4.040
2.923
48.369
A
A
13
14
3.119
A
A
1
21
2.878
2.552
1.632
-1.307
AA_G13C14:G21C1_AA
5
3.831
-4.682
48.163
-1.771
-1.727
-0.182
19.683
A
A
14
15
61.106
A
A
21
20
3.920
17.029
-0.290
-2.385
AA_C14A15:U20G21_AA
6
-3.906
14.016
9.100
-13.424
-0.631
3.648
58.556
A
A
15
16
8.144
A
A
20
19
3.901
7.944
-2.652
-1.297
AA_A15G16:A19U20_AA
7
1.464
-1.500
58.046
-1.806
2.800
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
2002-05-08
1
1
2008-04-27
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
2001-09-27
REL
REL
Sequence from Tetrahymena Thermophila.
sample
This structure was determined using standard 2D homonuclear techniques
1
2D NOESY
DQF-COSY
2D NOESY
100mM
5.5
ambient
283
K
100mM
5.5
ambient
278
K
simulated annealing
molecular dynamics
lowest energy
10mM Phosphate buffer NA, 99% D2O
99% D2O
10mM Phospate buffer NA, 90% H2O, 10% D2O
90% H2O/10% D2O
Brunger
structure solution
X-PLOR
3.8
data analysis
Felix
950
Brunger
refinement
X-PLOR
3.8
600
Bruker
DRX
750
Bruker
DMX
CYT
1
n
1
C
1
A
ADE
2
n
2
A
2
A
GUA
3
n
3
G
3
A
ADE
4
n
4
A
4
A
CYT
5
n
5
C
5
A
URI
6
n
6
U
6
A
URI
7
n
7
U
7
A
CYT
8
n
8
C
8
A
GUA
9
n
9
G
9
A
GUA
10
n
10
G
10
A
URI
11
n
11
U
11
A
CYT
12
n
12
C
12
A
GUA
13
n
13
G
13
A
CYT
14
n
14
C
14
A
ADE
15
n
15
A
15
A
GUA
16
n
16
G
16
A
ADE
17
n
17
A
17
A
GUA
18
n
18
G
18
A
ADE
19
n
19
A
19
A
URI
20
n
20
U
20
A
GUA
21
n
21
G
21
A
GUA
22
n
22
G
22
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
HO2'
O6
U
G
6
9
1.55
1
A
A
O2
H21
C
G
14
21
1.58
1
3.74
0.50
113.80
117.54
A
A
A
N7
C8
N9
A
A
A
2
2
2
N
1
4.55
0.50
113.10
117.65
A
A
A
N7
C8
N9
G
G
G
3
3
3
N
1
-2.68
0.40
106.40
103.72
A
A
A
C8
N9
C4
G
G
G
3
3
3
N
1
3.72
0.50
113.80
117.52
A
A
A
N7
C8
N9
A
A
A
4
4
4
N
1
4.67
0.50
113.10
117.77
A
A
A
N7
C8
N9
G
G
G
9
9
9
N
1
-2.73
0.40
106.40
103.67
A
A
A
C8
N9
C4
G
G
G
9
9
9
N
1
4.46
0.50
113.10
117.56
A
A
A
N7
C8
N9
G
G
G
10
10
10
N
1
-2.60
0.40
106.40
103.80
A
A
A
C8
N9
C4
G
G
G
10
10
10
N
1
4.48
0.50
113.10
117.58
A
A
A
N7
C8
N9
G
G
G
13
13
13
N
1
-2.62
0.40
106.40
103.78
A
A
A
C8
N9
C4
G
G
G
13
13
13
N
1
3.75
0.50
113.80
117.55
A
A
A
N7
C8
N9
A
A
A
15
15
15
N
1
4.61
0.50
113.10
117.71
A
A
A
N7
C8
N9
G
G
G
16
16
16
N
1
-2.69
0.40
106.40
103.71
A
A
A
C8
N9
C4
G
G
G
16
16
16
N
1
3.72
0.50
113.80
117.52
A
A
A
N7
C8
N9
A
A
A
17
17
17
N
1
4.57
0.50
113.10
117.67
A
A
A
N7
C8
N9
G
G
G
18
18
18
N
1
-2.70
0.40
106.40
103.70
A
A
A
C8
N9
C4
G
G
G
18
18
18
N
1
3.83
0.50
113.80
117.63
A
A
A
N7
C8
N9
A
A
A
19
19
19
N
1
4.49
0.50
113.10
117.59
A
A
A
N7
C8
N9
G
G
G
21
21
21
N
1
-2.61
0.40
106.40
103.79
A
A
A
C8
N9
C4
G
G
G
21
21
21
N
1
4.60
0.50
113.10
117.70
A
A
A
N7
C8
N9
G
G
G
22
22
22
N
1
-2.45
0.40
106.40
103.95
A
A
A
C8
N9
C4
G
G
G
22
22
22
N
Structural basis for the 3'-terminal guanosine recognition by the group I intron
1
N
N
hydrog
WATSON-CRICK
A
C
1
A
N3
C
1
1_555
A
G
13
A
N1
G
13
1_555
hydrog
WATSON-CRICK
A
C
1
A
N4
C
1
1_555
A
G
13
A
O6
G
13
1_555
hydrog
WATSON-CRICK
A
C
1
A
O2
C
1
1_555
A
G
13
A
N2
G
13
1_555
hydrog
WATSON-CRICK
A
G
3
A
N1
G
3
1_555
A
C
12
A
N3
C
12
1_555
hydrog
WATSON-CRICK
A
G
3
A
N2
G
3
1_555
A
C
12
A
O2
C
12
1_555
hydrog
WATSON-CRICK
A
G
3
A
O6
G
3
1_555
A
C
12
A
N4
C
12
1_555
hydrog
TYPE_6_PAIR
A
G
3
A
N7
G
3
1_555
A
G
22
A
N2
G
22
1_555
hydrog
TYPE_6_PAIR
A
G
3
A
O6
G
3
1_555
A
G
22
A
N1
G
22
1_555
hydrog
WATSON-CRICK
A
A
4
A
N1
A
4
1_555
A
U
11
A
N3
U
11
1_555
hydrog
WATSON-CRICK
A
A
4
A
N6
A
4
1_555
A
U
11
A
O4
U
11
1_555
hydrog
WATSON-CRICK
A
C
5
A
N3
C
5
1_555
A
G
10
A
N1
G
10
1_555
hydrog
WATSON-CRICK
A
C
5
A
N4
C
5
1_555
A
G
10
A
O6
G
10
1_555
hydrog
WATSON-CRICK
A
C
5
A
O2
C
5
1_555
A
G
10
A
N2
G
10
1_555
hydrog
U-G MISPAIR
A
U
6
A
O2
U
6
1_555
A
G
9
A
N1
G
9
1_555
hydrog
TYPE_28_PAIR
A
U
6
A
N3
U
6
1_555
A
G
10
A
O6
G
10
1_555
hydrog
TYPE_28_PAIR
A
U
6
A
O2
U
6
1_555
A
G
10
A
N1
G
10
1_555
hydrog
C-G PAIR
A
C
8
A
O2
C
8
1_555
A
G
9
A
N1
G
9
1_555
hydrog
C-G PAIR
A
C
12
A
N4
C
12
1_555
A
G
22
A
O6
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
A
15
A
N1
A
15
1_555
A
U
20
A
N3
U
20
1_555
hydrog
WATSON-CRICK
A
A
15
A
N6
A
15
1_555
A
U
20
A
O4
U
20
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
RNA
base triple recognition of a guanosine, UUCG tetraloop, GAGA tetraloop, RNA
1K2G
PDB
1
1K2G
1
22
1K2G
1
22
1K2G
A
1
1
22