1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
0000-0001-5368-706X
Lam, S.L.
0000-0001-7760-5786
Guo, P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
Na 1
22.990
SODIUM ION
non-polymer
US
J.Biomol.Struct.Dyn.
JBSDD6
0646
1538-0254
38
1946
1953
10.1080/07391102.2019.1621211
31107180
Unprecedented hydrophobic stabilizations from a reverse wobble T·T mispair in DNA minidumbbell.
2020
2408.589
DNA (5'-D(*CP*TP*TP*GP*CP*TP*TP*G)-3')
1
syn
polymer
22.990
SODIUM ION
7
syn
non-polymer
no
no
(DC)(DT)(DT)(DG)(DC)(DT)(DT)(DG)
CTTGCTTG
A
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
-5.374
1
19
A
1
A
4
1.575
A_DC1:DG4_A
1
11.030
-0.876
-0.165
-0.195
18.672
1
19
A
8
A
5
0.670
A_DG8:DC5_A
2
4.933
-0.147
0.265
0.079
-23.289
2
12
A
2
A
6
167.383
A_DT2:DT6_A
3
13.257
2.095
-1.444
-0.704
2.623
13.342
A
A
1
8
-18.581
A
A
4
5
2.799
-4.134
-0.107
-0.440
AA_DC1DG8:DC5DG4_AA
1
-5.019
22.557
11.656
1.951
-4.208
citation
citation_author
citation
citation
pdbx_nmr_spectrometer
repository
Initial release
Data collection
Database references
Data collection
Database references
Data collection
Database references
1
0
2019-05-29
1
1
2019-06-05
1
2
2019-06-12
1
3
2020-04-22
_citation.page_first
_citation.page_last
_citation.pdbx_database_id_PubMed
_citation.title
_citation_author.identifier_ORCID
_citation.page_last
_citation.title
_citation.journal_volume
_citation.page_first
_citation.page_last
_citation.year
_pdbx_nmr_spectrometer.model
DNA minidumbbell structure of two CTTG repeats
N
PDBJ
Y
PDBJ
2019-01-04
REL
REL
REL
NA
SODIUM ION
9606
Homo sapiens
sample
1
8
structures with the least restraint violations
1000
20
isotropic
2
2D 1H-1H NOESY
isotropic
2
2D 1H-1H TOCSY
isotropic
1
2D DQF-COSY
1
mM
No labeling
10
mM
No labeling
0.02
mM
No labeling
10
0.1
mM
condition_1
7.0
0.1
pH
1
0.01
bar
273
0.1
K
not applicable
1
least restraint violation
1 mM No labeling DNA, 10 mM No labeling sodium phosphate, 0.02 mM No labeling DSS, 99.96% D2O
No labeling
99.96% D2O
solution
Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman
structure calculation
Amber
Bruker Biospin
chemical shift assignment
TopSpin
500
Bruker
AVANCE
700
Bruker
AVANCE
NA
9
2
NA
NA
101
A
NA
10
2
NA
NA
102
A
NA
11
2
NA
NA
103
A
NA
12
2
NA
NA
104
A
NA
13
2
NA
NA
105
A
NA
14
2
NA
NA
106
A
NA
15
2
NA
NA
107
A
DC
1
n
1
DC
1
A
DT
2
n
2
DT
2
A
DT
3
n
3
DT
3
A
DG
4
n
4
DG
4
A
DC
5
n
5
DC
5
A
DT
6
n
6
DT
6
A
DT
7
n
7
DT
7
A
DG
8
n
8
DG
8
A
author_defined_assembly
1
monomeric
none
790
-60
1590
A
DT
2
A
OP1
DT
2
1_555
A
NA
107
H
NA
NA
1_555
A
DT
2
A
OP2
DT
2
1_555
58.7
A
DC
5
A
OP1
DC
5
1_555
A
NA
101
B
NA
NA
1_555
A
DC
5
A
O3'
DC
5
1_555
122.1
A
DT
7
A
OP1
DT
7
1_555
A
NA
105
F
NA
NA
1_555
A
DG
8
A
OP1
DG
8
1_555
97.2
A
DT
7
A
O5'
DT
7
1_555
A
NA
102
C
NA
NA
1_555
A
DG
8
A
OP1
DG
8
1_555
73.6
A
DT
7
A
O5'
DT
7
1_555
A
NA
102
C
NA
NA
1_555
A
DG
8
A
O5'
DG
8
1_555
95.6
A
DG
8
A
OP1
DG
8
1_555
A
NA
102
C
NA
NA
1_555
A
DG
8
A
O5'
DG
8
1_555
56.1
A
DT
7
A
O2
DT
7
1_555
A
NA
106
G
NA
NA
1_555
A
DG
8
A
O6
DG
8
1_555
77.7
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
DC
1
0.096
SIDE CHAIN
1
A
DG
4
0.200
SIDE CHAIN
1
A
DT
6
0.064
SIDE CHAIN
1
A
DT
7
0.075
SIDE CHAIN
2
A
DC
1
0.106
SIDE CHAIN
2
A
DT
2
0.063
SIDE CHAIN
2
A
DT
3
0.060
SIDE CHAIN
2
A
DG
4
0.205
SIDE CHAIN
3
A
DC
1
0.108
SIDE CHAIN
3
A
DT
2
0.062
SIDE CHAIN
3
A
DG
4
0.206
SIDE CHAIN
4
A
DC
1
0.086
SIDE CHAIN
4
A
DT
2
0.068
SIDE CHAIN
4
A
DG
4
0.208
SIDE CHAIN
4
A
DT
7
0.059
SIDE CHAIN
5
A
DC
1
0.062
SIDE CHAIN
5
A
DT
2
0.066
SIDE CHAIN
5
A
DG
4
0.197
SIDE CHAIN
5
A
DT
7
0.081
SIDE CHAIN
6
A
DC
1
0.077
SIDE CHAIN
6
A
DT
2
0.068
SIDE CHAIN
6
A
DG
4
0.212
SIDE CHAIN
7
A
DC
1
0.120
SIDE CHAIN
7
A
DG
4
0.209
SIDE CHAIN
7
A
DG
8
0.059
SIDE CHAIN
8
A
DC
1
0.074
SIDE CHAIN
8
A
DT
2
0.066
SIDE CHAIN
8
A
DG
4
0.210
SIDE CHAIN
8
A
DT
7
0.060
SIDE CHAIN
9
A
DC
1
0.132
SIDE CHAIN
9
A
DT
3
0.063
SIDE CHAIN
9
A
DG
4
0.207
SIDE CHAIN
9
A
DG
8
0.066
SIDE CHAIN
10
A
DC
1
0.075
SIDE CHAIN
10
A
DG
4
0.216
SIDE CHAIN
11
A
DC
1
0.066
SIDE CHAIN
11
A
DT
2
0.062
SIDE CHAIN
11
A
DG
4
0.215
SIDE CHAIN
11
A
DT
7
0.061
SIDE CHAIN
12
A
DC
1
0.061
SIDE CHAIN
12
A
DG
4
0.210
SIDE CHAIN
12
A
DT
6
0.074
SIDE CHAIN
13
A
DC
1
0.120
SIDE CHAIN
13
A
DG
4
0.213
SIDE CHAIN
13
A
DG
8
0.061
SIDE CHAIN
14
A
DC
1
0.101
SIDE CHAIN
14
A
DG
4
0.206
SIDE CHAIN
14
A
DT
7
0.062
SIDE CHAIN
15
A
DC
1
0.066
SIDE CHAIN
15
A
DT
2
0.060
SIDE CHAIN
15
A
DG
4
0.198
SIDE CHAIN
15
A
DT
7
0.080
SIDE CHAIN
16
A
DC
1
0.110
SIDE CHAIN
16
A
DG
4
0.209
SIDE CHAIN
16
A
DT
7
0.057
SIDE CHAIN
17
A
DC
1
0.072
SIDE CHAIN
17
A
DT
2
0.073
SIDE CHAIN
17
A
DG
4
0.213
SIDE CHAIN
18
A
DC
1
0.068
SIDE CHAIN
18
A
DT
2
0.071
SIDE CHAIN
18
A
DG
4
0.213
SIDE CHAIN
19
A
DC
1
0.071
SIDE CHAIN
19
A
DT
2
0.075
SIDE CHAIN
19
A
DG
4
0.198
SIDE CHAIN
19
A
DT
7
0.071
SIDE CHAIN
20
A
DC
1
0.066
SIDE CHAIN
20
A
DG
4
0.216
SIDE CHAIN
20
A
DT
7
0.062
SIDE CHAIN
1
3.11
0.30
108.30
111.41
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
2.96
0.30
108.30
111.26
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
1
-3.99
0.60
122.90
118.91
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
1
8.07
1.20
119.70
127.77
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
1
2.82
0.30
108.30
111.12
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
1
-3.81
0.60
122.90
119.09
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
1
6.21
0.30
108.30
114.51
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
6.07
0.30
108.30
114.37
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
1
-4.79
0.60
122.90
118.11
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
1
1.98
0.30
108.30
110.28
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
2
3.03
0.30
108.30
111.33
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
2
7.55
1.20
119.70
127.25
A
A
A
C3'
O3'
P
DC
DC
DT
1
1
2
Y
2
3.85
0.30
108.30
112.15
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
2
-3.88
0.60
122.90
119.02
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
2
7.96
1.20
119.70
127.66
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
2
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
2
-3.95
0.60
122.90
118.95
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
2
6.24
0.30
108.30
114.54
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
2
4.19
0.30
108.30
112.49
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
2
-4.17
0.60
122.90
118.73
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
2
-4.89
0.60
122.90
118.01
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
2
1.93
0.30
108.30
110.23
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
3
2.57
0.30
108.30
110.87
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
3
7.60
1.20
119.70
127.30
A
A
A
C3'
O3'
P
DC
DC
DT
1
1
2
Y
3
4.12
0.30
108.30
112.42
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
3
-3.62
0.60
122.90
119.28
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
3
7.83
1.20
119.70
127.53
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
3
2.67
0.30
108.30
110.97
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
3
-4.03
0.60
122.90
118.87
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
3
6.42
0.30
108.30
114.72
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
3.95
0.30
108.30
112.25
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
3
-4.14
0.60
122.90
118.76
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
3
-5.28
0.60
122.90
117.62
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
3
1.91
0.30
108.30
110.21
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
4
2.11
0.30
108.30
110.41
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
4
3.84
0.30
108.30
112.14
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
4
-3.76
0.60
122.90
119.14
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
4
7.60
1.20
119.70
127.30
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
4
2.86
0.30
108.30
111.16
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
4
-4.21
0.60
122.90
118.69
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
4
6.08
0.30
108.30
114.38
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
4.58
0.30
108.30
112.88
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
4
-3.92
0.60
122.90
118.98
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
4
-4.87
0.60
122.90
118.03
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
5
3.17
0.30
108.30
111.47
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
5
-4.05
0.60
122.90
118.85
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
5
7.80
1.20
119.70
127.50
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
5
2.95
0.30
108.30
111.25
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
5
-4.09
0.60
122.90
118.81
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
5
6.08
0.30
108.30
114.38
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
5
5.27
0.30
108.30
113.57
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
5
-5.27
0.60
122.90
117.63
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
6
2.20
0.30
108.30
110.50
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
6
3.03
0.30
108.30
111.33
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
6
-4.14
0.60
122.90
118.76
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
6
7.60
1.20
119.70
127.30
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
6
3.10
0.30
108.30
111.40
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
6
-4.21
0.60
122.90
118.69
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
6
6.16
0.30
108.30
114.46
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
6
4.88
0.30
108.30
113.18
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
6
-3.74
0.60
122.90
119.16
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
6
-4.91
0.60
122.90
117.99
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
6
1.85
0.30
108.30
110.15
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
7
2.39
0.30
108.30
110.69
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
7
3.08
0.30
108.30
111.38
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
7
-4.00
0.60
122.90
118.90
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
7
7.97
1.20
119.70
127.67
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
7
3.04
0.30
108.30
111.34
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
7
-3.90
0.60
122.90
119.00
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
7
3.70
0.60
106.00
109.70
A
A
A
O4'
C4'
C3'
DG
DG
DG
4
4
4
N
7
6.46
0.30
108.30
114.76
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
7
4.26
0.30
108.30
112.56
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
7
-3.84
0.60
122.90
119.06
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
7
-4.96
0.60
122.90
117.94
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
7
1.82
0.30
108.30
110.12
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
8
3.56
0.30
108.30
111.86
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
8
-3.72
0.60
122.90
119.18
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
8
7.43
1.20
119.70
127.13
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
8
3.00
0.30
108.30
111.30
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
8
-4.30
0.60
122.90
118.60
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
8
6.09
0.30
108.30
114.39
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
8
4.30
0.30
108.30
112.60
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
8
-3.92
0.60
122.90
118.98
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
8
-5.48
0.60
122.90
117.42
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
9
3.23
0.30
108.30
111.53
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
9
3.71
0.30
108.30
112.01
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
9
-3.66
0.60
122.90
119.24
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
9
7.82
1.20
119.70
127.52
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
9
2.70
0.30
108.30
111.00
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
9
-4.09
0.60
122.90
118.81
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
9
3.67
0.60
106.00
109.67
A
A
A
O4'
C4'
C3'
DG
DG
DG
4
4
4
N
9
6.40
0.30
108.30
114.70
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
9
3.78
0.30
108.30
112.08
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
9
-4.06
0.60
122.90
118.84
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
9
-5.54
0.60
122.90
117.36
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
10
2.06
0.30
108.30
110.36
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
10
3.14
0.30
108.30
111.44
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
10
-3.97
0.60
122.90
118.93
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
10
7.63
1.20
119.70
127.33
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
10
2.78
0.30
108.30
111.08
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
10
-4.33
0.60
122.90
118.57
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
10
6.38
0.30
108.30
114.68
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
10
5.29
0.30
108.30
113.59
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
10
-3.79
0.60
122.90
119.11
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
10
-4.84
0.60
122.90
118.06
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
10
1.97
0.30
108.30
110.27
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
11
3.39
0.30
108.30
111.69
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
11
-4.01
0.60
122.90
118.89
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
11
7.58
1.20
119.70
127.28
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
11
2.71
0.30
108.30
111.01
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
11
-4.30
0.60
122.90
118.60
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
11
6.15
0.30
108.30
114.45
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
11
4.66
0.30
108.30
112.96
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
11
-3.85
0.60
122.90
119.05
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
11
-5.04
0.60
122.90
117.86
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
11
1.84
0.30
108.30
110.14
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
12
2.16
0.30
108.30
110.46
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
12
3.04
0.30
108.30
111.34
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
12
-4.14
0.60
122.90
118.76
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
12
7.56
1.20
119.70
127.26
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
12
3.14
0.30
108.30
111.44
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
12
-3.91
0.60
122.90
118.99
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
12
6.67
0.30
108.30
114.97
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
12
5.82
0.30
108.30
114.12
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
12
9.15
1.20
119.70
128.85
A
A
A
C3'
O3'
P
DT
DT
DT
6
6
7
Y
12
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
12
2.09
0.30
108.30
110.39
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
13
3.39
0.30
108.30
111.69
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
13
3.13
0.30
108.30
111.43
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
13
-3.95
0.60
122.90
118.95
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
13
8.02
1.20
119.70
127.72
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
13
3.03
0.30
108.30
111.33
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
13
-3.78
0.60
122.90
119.12
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
13
3.63
0.60
106.00
109.63
A
A
A
O4'
C4'
C3'
DG
DG
DG
4
4
4
N
13
6.43
0.30
108.30
114.73
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
13
4.25
0.30
108.30
112.55
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
13
-3.83
0.60
122.90
119.07
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
13
-4.84
0.60
122.90
118.06
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
13
1.99
0.30
108.30
110.29
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
14
2.31
0.30
108.30
110.61
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
14
7.55
1.20
119.70
127.25
A
A
A
C3'
O3'
P
DC
DC
DT
1
1
2
Y
14
3.44
0.30
108.30
111.74
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
14
-3.87
0.60
122.90
119.03
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
14
7.80
1.20
119.70
127.50
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
14
2.91
0.30
108.30
111.21
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
14
-3.84
0.60
122.90
119.06
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
14
6.15
0.30
108.30
114.45
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
14
3.93
0.30
108.30
112.23
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
14
-3.87
0.60
122.90
119.03
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
14
-5.38
0.60
122.90
117.52
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
15
3.21
0.30
108.30
111.51
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
15
-3.87
0.60
122.90
119.03
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
15
7.35
1.20
119.70
127.05
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
15
3.18
0.30
108.30
111.48
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
15
-4.13
0.60
122.90
118.77
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
15
6.13
0.30
108.30
114.43
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
15
5.32
0.30
108.30
113.62
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
15
-5.26
0.60
122.90
117.64
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
15
1.83
0.30
108.30
110.13
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
16
2.51
0.30
108.30
110.81
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
16
7.44
1.20
119.70
127.14
A
A
A
C3'
O3'
P
DC
DC
DT
1
1
2
Y
16
3.18
0.30
108.30
111.48
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
16
-4.00
0.60
122.90
118.90
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
16
7.93
1.20
119.70
127.63
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
16
3.21
0.30
108.30
111.51
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
16
-4.03
0.60
122.90
118.87
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
16
6.24
0.30
108.30
114.54
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
16
4.43
0.30
108.30
112.73
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
16
-3.67
0.60
122.90
119.23
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
16
-5.30
0.60
122.90
117.60
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
16
1.95
0.30
108.30
110.25
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
17
3.47
0.30
108.30
111.77
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
17
-3.95
0.60
122.90
118.95
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
17
7.55
1.20
119.70
127.25
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
17
3.09
0.30
108.30
111.39
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
17
-4.22
0.60
122.90
118.68
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
17
6.08
0.30
108.30
114.38
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
17
4.83
0.30
108.30
113.13
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
17
-3.74
0.60
122.90
119.16
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
17
-4.78
0.60
122.90
118.12
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
17
2.00
0.30
108.30
110.30
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
18
3.44
0.30
108.30
111.74
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
18
-3.96
0.60
122.90
118.94
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
18
7.45
1.20
119.70
127.15
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
18
3.04
0.30
108.30
111.34
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
18
-4.15
0.60
122.90
118.75
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
18
5.94
0.30
108.30
114.24
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
18
4.77
0.30
108.30
113.07
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
18
-3.82
0.60
122.90
119.08
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
18
-4.85
0.60
122.90
118.05
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
19
2.22
0.30
108.30
110.52
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
19
3.97
0.30
108.30
112.27
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
19
7.49
1.20
119.70
127.19
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
19
2.40
0.30
108.30
110.70
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
19
-4.07
0.60
122.90
118.83
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
19
6.02
0.30
108.30
114.32
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
19
4.74
0.30
108.30
113.04
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
19
-4.79
0.60
122.90
118.11
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
20
3.06
0.30
108.30
111.36
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
20
-3.80
0.60
122.90
119.10
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
20
7.63
1.20
119.70
127.33
A
A
A
C3'
O3'
P
DT
DT
DT
2
2
3
Y
20
2.75
0.30
108.30
111.05
A
A
A
O4'
C1'
N1
DT
DT
DT
3
3
3
N
20
-4.30
0.60
122.90
118.60
A
A
A
C6
C5
C7
DT
DT
DT
3
3
3
N
20
6.13
0.30
108.30
114.43
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
20
4.73
0.30
108.30
113.03
A
A
A
O4'
C1'
N1
DT
DT
DT
6
6
6
N
20
-3.89
0.60
122.90
119.01
A
A
A
C6
C5
C7
DT
DT
DT
6
6
6
N
20
-4.98
0.60
122.90
117.92
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
N
DNA (5'-D(*CP*TP*TP*GP*CP*TP*TP*G)-3')
DNA minidumbbell structure of two CTTG repeats
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
metalc
2.579
A
DT
2
A
OP1
DT
2
1_555
A
NA
107
H
NA
NA
1_555
metalc
2.592
A
DT
2
A
OP2
DT
2
1_555
A
NA
107
H
NA
NA
1_555
metalc
2.503
A
DG
4
A
OP1
DG
4
1_555
A
NA
103
D
NA
NA
1_555
metalc
2.613
A
DC
5
A
OP1
DC
5
1_555
A
NA
101
B
NA
NA
1_555
metalc
2.494
A
DC
5
A
OP2
DC
5
1_555
A
NA
104
E
NA
NA
1_555
metalc
2.931
A
DC
5
A
O3'
DC
5
1_555
A
NA
101
B
NA
NA
1_555
metalc
2.486
A
DT
7
A
OP1
DT
7
1_555
A
NA
105
F
NA
NA
1_555
metalc
2.655
A
DT
7
A
O5'
DT
7
1_555
A
NA
102
C
NA
NA
1_555
metalc
2.606
A
DT
7
A
O2
DT
7
1_555
A
NA
106
G
NA
NA
1_555
metalc
2.517
A
DG
8
A
OP1
DG
8
1_555
A
NA
102
C
NA
NA
1_555
metalc
2.502
A
DG
8
A
OP1
DG
8
1_555
A
NA
105
F
NA
NA
1_555
metalc
2.779
A
DG
8
A
O5'
DG
8
1_555
A
NA
102
C
NA
NA
1_555
metalc
2.568
A
DG
8
A
O6
DG
8
1_555
A
NA
106
G
NA
NA
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
A
DG
4
A
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
A
DG
4
A
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
A
DG
4
A
N2
DG
4
1_555
hydrog
TYPE_12_PAIR
A
DT
2
A
N3
DT
2
1_555
A
DT
6
A
O4
DT
6
1_555
hydrog
TYPE_12_PAIR
A
DT
2
A
O4
DT
2
1_555
A
DT
6
A
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
A
DG
8
A
N1
DG
8
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
A
DG
8
A
O6
DG
8
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
A
DG
8
A
N2
DG
8
1_555
DNA
minidumbbell, reverse wobble TT mispair, hydrophobic interaction, DNA
6J37
PDB
1
1
6J37
1
8
6J37
1
8
6J37
A
1
1
8
binding site for residue NA A 101
A
NA
101
Software
2
binding site for residue NA A 102
A
NA
102
Software
2
binding site for residue NA A 103
A
NA
103
Software
2
binding site for residue NA A 104
A
NA
104
Software
2
binding site for residue NA A 105
A
NA
105
Software
2
binding site for residue NA A 106
A
NA
106
Software
2
binding site for residue NA A 107
A
NA
107
Software
1
A
DG
4
A
DG
4
2
1_555
A
DC
5
A
DC
5
2
1_555
A
DT
7
A
DT
7
2
1_555
A
DG
8
A
DG
8
2
1_555
A
DT
3
A
DT
3
2
1_555
A
DG
4
A
DG
4
2
1_555
A
DG
4
A
DG
4
2
1_555
A
DC
5
A
DC
5
2
1_555
A
DT
7
A
DT
7
2
1_555
A
DG
8
A
DG
8
2
1_555
A
DT
7
A
DT
7
2
1_555
A
DG
8
A
DG
8
2
1_555
A
DT
2
A
DT
2
1
1_555