1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Davis, E.V.
Hennig, M.
0000-0001-5873-1066
Arya, D.P.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
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 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
To Be Published
0353
An NMR Structure Determination and Analysis of Four Sp1 Consensus Sequences
10.2210/pdb6ed9/pdb
pdb_00006ed9
2836.859
DNA (5'-D(*TP*GP*GP*GP*CP*GP*GP*GP*A)-3')
1
syn
polymer
2636.739
DNA (5'-D(*TP*CP*CP*CP*GP*CP*CP*CP*A)-3')
1
syn
polymer
no
no
(DT)(DG)(DG)(DG)(DC)(DG)(DG)(DG)(DA)
TGGGCGGGA
A
polydeoxyribonucleotide
no
no
(DT)(DC)(DC)(DC)(DG)(DC)(DC)(DC)(DA)
TCCCGCCCA
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-1.531
1
20
A
1
B
18
-0.851
A_DT1:DA18_B
1
-13.813
-0.193
-0.469
-0.014
-11.812
1
19
A
2
B
17
0.309
A_DG2:DC17_B
2
-14.293
-0.406
-0.097
-0.091
-0.756
1
19
A
3
B
16
-0.141
A_DG3:DC16_B
3
-10.445
-0.520
0.066
-0.138
-10.817
1
19
A
4
B
15
0.461
A_DG4:DC15_B
4
-12.493
-0.557
-0.087
-0.156
-1.288
1
19
A
5
B
14
-1.704
A_DC5:DG14_B
5
-5.081
0.438
0.040
-0.119
-4.867
1
19
A
6
B
13
0.778
A_DG6:DC13_B
6
-12.992
-0.379
0.018
-0.094
2.840
1
19
A
7
B
12
-0.150
A_DG7:DC12_B
7
-0.979
-0.469
0.037
-0.127
2.492
1
19
A
8
B
11
0.230
A_DG8:DC11_B
8
-13.051
-0.344
0.036
-0.100
9.444
1
20
A
9
B
10
-0.971
A_DA9:DT10_B
9
-17.051
0.201
-0.150
0.009
2.856
34.229
A
A
1
2
22.874
B
B
18
17
3.637
13.071
0.427
-1.053
AA_DT1DG2:DC17DA18_BB
1
-5.884
10.297
31.165
-3.938
-1.693
2.590
29.248
A
A
2
3
12.764
B
B
17
16
3.044
6.391
0.127
-1.722
AA_DG2DG3:DC16DC17_BB
2
-1.946
3.886
28.491
-4.619
-0.620
3.259
36.288
A
A
3
4
8.968
B
B
16
15
3.487
5.565
-0.332
-1.257
AA_DG3DG4:DC15DC16_BB
3
0.245
-0.395
35.872
-2.826
0.569
2.907
34.477
A
A
4
5
12.019
B
B
15
14
3.099
7.076
0.277
-0.660
AA_DG4DC5:DG14DC15_BB
4
0.230
-0.390
33.764
-2.133
-0.435
3.554
24.386
A
A
5
6
0.283
B
B
14
13
3.579
0.120
0.882
-1.499
AA_DC5DG6:DC13DG14_BB
5
-0.494
1.169
24.381
-3.589
-2.257
3.100
23.035
A
A
6
7
0.746
B
B
13
12
3.090
0.298
-1.041
-1.279
AA_DG6DG7:DC12DC13_BB
6
-0.638
1.598
23.024
-3.301
2.394
3.405
37.453
A
A
7
8
8.318
B
B
12
11
3.305
5.317
-1.273
0.220
AA_DG7DG8:DC11DC12_BB
7
-3.486
5.454
36.929
-0.378
1.510
3.182
34.160
A
A
8
9
4.324
B
B
11
10
3.270
2.531
-0.087
-0.572
AA_DG8DA9:DT10DC11_BB
8
4.526
-7.732
33.776
-1.371
0.858
pdbx_audit_support
pdbx_nmr_spectrometer
database_2
pdbx_database_status
repository
Initial release
Author supporting evidence
Data collection
Database references
Other
1
0
2019-08-14
1
1
2019-12-18
1
2
2023-06-14
_pdbx_audit_support.funding_organization
_pdbx_nmr_spectrometer.model
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_nmr_data
United States
National Institutes of Health/National Human Genome Research Institute (NIH/NHGRI)
GM097917
NMR structure for Sp1 transcription factor duplex 5'-d(TGGGCGGGA)
N
RCSB
Y
RCSB
2018-08-09
REL
REL
REL
REL
9606
Human
Homo sapiens
sample
1
9
9606
Human
Homo sapiens
sample
1
9
structures with the lowest energy
20
10
isotropic
1
2D DQF-COSY
isotropic
1
2D 1H-1H TOCSY
isotropic
1
2D 1H-13C HSQC
isotropic
1
2D 1H-1H NOESY
isotropic
2
2D 1H-1H NOESY
isotropic
2
2D ECOSY
650
uM
natural abundance
25
mM
natural abundance
5
mM
natural abundance
0.5
mM
natural abundance
675
uM
natural abundance
25
mM
natural abundance
5
mM
natural abundance
0.5
mM
natural abundance
all nmr experiments
30 mM Na+
mM
general
7.0
pH
1
atm
298
K
simulated annealing
1
closest to the average
650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O
equal molar eq.
d(TGGGCGGGA).d(TCCCGCCCA)
100% D2O
25 mM NaCl, 5.0 mM Na Phosphate, 0.5 mM EDTA
pH 7.0
non-exchange
100% D2O
solution
675 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 90% H2O/10% D2O
equal molar eq.
d(TGGGCGGGA).d(TCCCGCCCA)
90% H2O/10% D2O
25 mM NaCl, 5.0 mM Na Phosphate, 0.5 mM EDTA
pH 7.0
exchange
90% H2O/10% D2O
solution
Guntert, Mumenthaler and Wuthrich
structure calculation
CYANA
3.97
Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman
refinement
Amber
14.0
Goddard
chemical shift assignment
Sparky
Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
processing
NMRPipe
Lu
data analysis
3DNA
Bruker Biospin
collection
TopSpin
800
Bruker
AVANCE
850
Bruker
AVANCE III
DT
1
n
1
DT
1
A
DG
2
n
2
DG
2
A
DG
3
n
3
DG
3
A
DG
4
n
4
DG
4
A
DC
5
n
5
DC
5
A
DG
6
n
6
DG
6
A
DG
7
n
7
DG
7
A
DG
8
n
8
DG
8
A
DA
9
n
9
DA
9
A
DT
10
n
1
DT
10
B
DC
11
n
2
DC
11
B
DC
12
n
3
DC
12
B
DC
13
n
4
DC
13
B
DG
14
n
5
DG
14
B
DC
15
n
6
DC
15
B
DC
16
n
7
DC
16
B
DC
17
n
8
DC
17
B
DA
18
n
9
DA
18
B
author_defined_assembly
2
dimeric
UV Thermal Denaturation, CD Spectroscopy
none
870
-7
3660
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
DG
4
0.059
SIDE CHAIN
1
A
DG
6
0.061
SIDE CHAIN
1
B
DG
14
0.099
SIDE CHAIN
3
A
DG
4
0.061
SIDE CHAIN
3
A
DG
7
0.072
SIDE CHAIN
3
B
DC
11
0.068
SIDE CHAIN
3
B
DC
13
0.063
SIDE CHAIN
3
B
DG
14
0.069
SIDE CHAIN
4
A
DG
4
0.066
SIDE CHAIN
4
A
DG
7
0.069
SIDE CHAIN
4
B
DG
14
0.070
SIDE CHAIN
5
A
DG
7
0.099
SIDE CHAIN
5
B
DC
13
0.092
SIDE CHAIN
6
A
DC
5
0.060
SIDE CHAIN
6
A
DG
7
0.067
SIDE CHAIN
6
B
DC
13
0.082
SIDE CHAIN
7
B
DG
14
0.053
SIDE CHAIN
9
A
DG
4
0.060
SIDE CHAIN
9
B
DG
14
0.091
SIDE CHAIN
10
A
DG
7
0.064
SIDE CHAIN
10
B
DC
15
0.066
SIDE CHAIN
1
1.92
0.30
108.30
110.22
A
A
A
O4'
C1'
N1
DT
DT
DT
1
1
1
N
1
3.34
0.30
108.30
111.64
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
1
3.73
0.30
108.30
112.03
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
1
1.91
0.30
108.30
110.21
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
2.74
0.30
108.30
111.04
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
1
3.87
0.60
118.90
122.77
A
A
A
N1
C2
O2
DC
DC
DC
5
5
5
N
1
-5.54
0.70
121.90
116.36
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
1
3.40
0.30
108.30
111.70
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
3.69
0.30
108.30
111.99
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
1
1.97
0.30
108.30
110.27
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
1
-3.29
0.50
117.00
113.71
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
1
3.65
0.50
117.70
121.35
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
1
-4.97
0.60
118.60
113.63
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
1
2.18
0.30
108.30
110.48
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
-5.12
0.70
121.90
116.78
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
1
2.54
0.30
108.30
110.84
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
3.65
0.60
118.90
122.55
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
1
-5.54
0.70
121.90
116.36
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
1
6.40
0.30
108.30
114.70
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
1
-5.13
0.70
121.90
116.77
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
1
2.33
0.30
108.30
110.63
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
1.96
0.30
108.30
110.26
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
-4.86
0.70
121.90
117.04
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
1
2.98
0.30
108.30
111.28
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
1
-5.08
0.70
121.90
116.82
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
1
2.49
0.30
108.30
110.79
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
1
-5.03
0.70
121.90
116.87
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
1
-3.35
0.50
117.00
113.65
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
1
3.68
0.50
117.70
121.38
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
1
-4.93
0.60
118.60
113.67
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
2
3.28
0.30
108.30
111.58
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
2
2.70
0.30
108.30
111.00
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
2
3.22
0.30
108.30
111.52
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
2
2.52
0.30
108.30
110.82
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
2
-4.95
0.70
121.90
116.95
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
2
3.04
0.30
108.30
111.34
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
2
3.08
0.30
108.30
111.38
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
2
2.73
0.30
108.30
111.03
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
2
2.93
0.30
108.30
111.23
A
A
A
O4'
C1'
N9
DA
DA
DA
9
9
9
N
2
-3.35
0.50
117.00
113.65
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
2
3.67
0.50
117.70
121.37
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
2
-4.97
0.60
118.60
113.63
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
2
-3.62
0.60
122.90
119.28
B
B
B
C6
C5
C7
DT
DT
DT
10
10
10
N
2
2.92
0.30
108.30
111.22
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
2
-5.14
0.70
121.90
116.76
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
2
3.46
0.30
108.30
111.76
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
2
-4.97
0.70
121.90
116.93
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
2
2.46
0.30
108.30
110.76
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
2
-5.21
0.70
121.90
116.69
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
2
3.50
0.30
108.30
111.80
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
2
2.45
0.30
108.30
110.75
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
2
-4.90
0.70
121.90
117.00
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
2
3.40
0.30
108.30
111.70
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
2
-5.34
0.70
121.90
116.56
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
2
3.85
0.30
108.30
112.15
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
2
-4.97
0.70
121.90
116.93
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
2
-3.37
0.50
117.00
113.63
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
2
3.71
0.50
117.70
121.41
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
2
-4.95
0.60
118.60
113.65
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
3
2.81
0.30
108.30
111.11
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
3
3.78
0.30
108.30
112.08
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
3
1.88
0.30
108.30
110.18
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
3
3.76
0.30
108.30
112.06
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
3
-5.37
0.70
121.90
116.53
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
3
2.55
0.30
108.30
110.85
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
3
1.92
0.30
108.30
110.22
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
3
-3.41
0.50
117.00
113.59
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
3
3.49
0.50
117.70
121.19
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
3
-5.06
0.60
118.60
113.54
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
3
-5.00
0.70
121.90
116.90
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
3
3.11
0.30
108.30
111.41
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
3
-5.56
0.70
121.90
116.34
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
3
3.63
0.30
108.30
111.93
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
3
-5.14
0.70
121.90
116.76
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
3
3.22
0.30
108.30
111.52
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
3
-5.05
0.70
121.90
116.85
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
3
2.73
0.30
108.30
111.03
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
3
-4.95
0.70
121.90
116.95
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
3
2.59
0.30
108.30
110.89
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
3
-5.09
0.70
121.90
116.81
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
3
-3.31
0.50
117.00
113.69
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
3
3.65
0.50
117.70
121.35
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
3
-4.79
0.60
118.60
113.81
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
4
2.86
0.30
108.30
111.16
A
A
A
O4'
C1'
N1
DT
DT
DT
1
1
1
N
4
3.50
0.30
108.30
111.80
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
4
1.85
0.30
108.30
110.15
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
4
3.33
0.30
108.30
111.63
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
4
-5.40
0.70
121.90
116.50
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
4
3.19
0.30
108.30
111.49
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
4
2.65
0.30
108.30
110.95
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
4
3.83
0.30
108.30
112.13
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
4
-3.44
0.50
117.00
113.56
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
4
3.71
0.50
117.70
121.41
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
4
-5.00
0.60
118.60
113.60
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
4
1.87
0.30
108.30
110.17
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
4
-5.01
0.70
121.90
116.89
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
4
3.18
0.30
108.30
111.48
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
4
3.64
0.60
118.90
122.54
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
4
-5.45
0.70
121.90
116.45
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
4
4.07
0.30
108.30
112.37
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
4
-5.19
0.70
121.90
116.71
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
4
3.16
0.30
108.30
111.46
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
4
-4.99
0.70
121.90
116.91
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
4
2.94
0.30
108.30
111.24
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
4
-4.97
0.70
121.90
116.93
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
4
1.92
0.30
108.30
110.22
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
4
-5.15
0.70
121.90
116.75
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
4
-3.35
0.50
117.00
113.65
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
4
3.49
0.50
117.70
121.19
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
4
-5.11
0.60
118.60
113.49
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
5
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
5
4.03
0.30
108.30
112.33
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
5
2.39
0.30
108.30
110.69
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
5
6.07
0.30
108.30
114.37
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
5
-4.84
0.70
121.90
117.06
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
5
4.21
0.30
108.30
112.51
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
5
-3.27
0.50
117.00
113.73
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
5
3.60
0.50
117.70
121.30
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
5
-5.01
0.60
118.60
113.59
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
5
2.61
0.30
108.30
110.91
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
5
3.70
0.60
118.90
122.60
B
B
B
N1
C2
O2
DC
DC
DC
11
11
11
N
5
-5.47
0.70
121.90
116.43
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
5
5.47
0.30
108.30
113.77
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
5
-5.08
0.70
121.90
116.82
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
5
2.54
0.30
108.30
110.84
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
5
-5.13
0.70
121.90
116.77
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
5
2.54
0.30
108.30
110.84
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
5
1.93
0.30
108.30
110.23
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
5
-4.90
0.70
121.90
117.00
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
5
-4.97
0.70
121.90
116.93
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
5
4.24
0.30
108.30
112.54
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
5
-5.06
0.70
121.90
116.84
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
5
2.03
0.30
108.30
110.33
B
B
B
O4'
C1'
N9
DA
DA
DA
18
18
18
N
5
-3.29
0.50
117.00
113.71
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
5
3.70
0.50
117.70
121.40
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
5
-4.86
0.60
118.60
113.74
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
6
2.98
0.30
108.30
111.28
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
6
3.46
0.30
108.30
111.76
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
6
4.01
0.30
108.30
112.31
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
6
3.06
0.30
108.30
111.36
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
6
3.67
0.60
118.90
122.57
A
A
A
N1
C2
O2
DC
DC
DC
5
5
5
N
6
-5.25
0.70
121.90
116.65
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
6
2.63
0.30
108.30
110.93
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
6
2.05
0.30
108.30
110.35
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
6
3.66
0.30
108.30
111.96
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
6
-3.34
0.50
117.00
113.66
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
6
3.65
0.50
117.70
121.35
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
6
-5.05
0.60
118.60
113.55
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
6
1.92
0.30
108.30
110.22
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
6
-4.97
0.70
121.90
116.93
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
6
2.81
0.30
108.30
111.11
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
6
3.68
0.60
118.90
122.58
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
6
-5.39
0.70
121.90
116.51
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
6
3.26
0.30
108.30
111.56
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
6
-5.02
0.70
121.90
116.88
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
6
2.79
0.30
108.30
111.09
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
6
-4.82
0.70
121.90
117.08
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
6
2.85
0.30
108.30
111.15
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
6
-4.95
0.70
121.90
116.95
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
6
3.56
0.30
108.30
111.86
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
6
-5.04
0.70
121.90
116.86
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
6
-3.40
0.50
117.00
113.60
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
6
3.70
0.50
117.70
121.40
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
6
-5.04
0.60
118.60
113.56
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
7
-3.61
0.60
122.90
119.29
A
A
A
C6
C5
C7
DT
DT
DT
1
1
1
N
7
3.37
0.30
108.30
111.67
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
7
2.89
0.30
108.30
111.19
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
7
3.56
0.30
108.30
111.86
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
7
2.90
0.30
108.30
111.20
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
7
-4.86
0.70
121.90
117.04
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
7
1.90
0.30
108.30
110.20
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
7
2.98
0.30
108.30
111.28
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
7
3.14
0.30
108.30
111.44
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
7
-3.35
0.50
117.00
113.65
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
7
3.59
0.50
117.70
121.29
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
7
-5.01
0.60
118.60
113.59
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
7
2.23
0.30
108.30
110.53
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
7
-5.02
0.70
121.90
116.88
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
7
2.42
0.30
108.30
110.72
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
7
-4.98
0.70
121.90
116.92
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
7
2.63
0.30
108.30
110.93
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
7
3.61
0.60
118.90
122.51
B
B
B
N1
C2
O2
DC
DC
DC
13
13
13
N
7
-5.55
0.70
121.90
116.35
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
7
3.69
0.30
108.30
111.99
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
7
2.80
0.30
108.30
111.10
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
7
3.61
0.60
118.90
122.51
B
B
B
N1
C2
O2
DC
DC
DC
15
15
15
N
7
-5.42
0.70
121.90
116.48
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
7
4.52
0.30
108.30
112.82
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
7
-4.85
0.70
121.90
117.05
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
7
2.74
0.30
108.30
111.04
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
7
-5.02
0.70
121.90
116.88
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
7
-3.25
0.50
117.00
113.75
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
7
3.72
0.50
117.70
121.42
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
7
-4.95
0.60
118.60
113.65
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
8
6.28
0.30
108.30
114.58
A
A
A
O4'
C1'
N1
DT
DT
DT
1
1
1
N
8
4.04
0.30
108.30
112.34
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
8
3.03
0.30
108.30
111.33
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
8
4.74
0.30
108.30
113.04
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
8
2.13
0.30
108.30
110.43
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
8
-4.72
0.70
121.90
117.18
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
8
2.10
0.30
108.30
110.40
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
8
2.89
0.30
108.30
111.19
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
8
2.99
0.30
108.30
111.29
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
8
-3.34
0.50
117.00
113.66
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
8
3.57
0.50
117.70
121.27
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
8
-5.00
0.60
118.60
113.60
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
8
2.19
0.30
108.30
110.49
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
8
-4.99
0.70
121.90
116.91
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
8
2.69
0.30
108.30
110.99
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
8
-4.94
0.70
121.90
116.96
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
8
2.18
0.30
108.30
110.48
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
8
3.76
0.60
118.90
122.66
B
B
B
N1
C2
O2
DC
DC
DC
13
13
13
N
8
-5.57
0.70
121.90
116.33
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
8
3.73
0.30
108.30
112.03
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
8
2.67
0.30
108.30
110.97
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
8
-4.89
0.70
121.90
117.01
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
8
3.59
0.30
108.30
111.89
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
8
-5.21
0.70
121.90
116.69
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
8
3.58
0.30
108.30
111.88
B
B
B
O4'
C1'
N1
DC
DC
DC
17
17
17
N
8
-5.13
0.70
121.90
116.77
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
8
-3.39
0.50
117.00
113.61
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
8
3.44
0.50
117.70
121.14
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
8
-5.28
0.60
118.60
113.32
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
9
4.02
0.30
108.30
112.32
A
A
A
O4'
C1'
N1
DT
DT
DT
1
1
1
N
9
3.90
0.30
108.30
112.20
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
9
3.10
0.30
108.30
111.40
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
9
3.33
0.30
108.30
111.63
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
9
3.70
0.60
118.90
122.60
A
A
A
N1
C2
O2
DC
DC
DC
5
5
5
N
9
-5.23
0.70
121.90
116.67
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
9
3.73
0.30
108.30
112.03
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
9
3.07
0.30
108.30
111.37
A
A
A
O4'
C1'
N9
DG
DG
DG
7
7
7
N
9
3.34
0.30
108.30
111.64
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
9
-3.37
0.50
117.00
113.63
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
9
3.63
0.50
117.70
121.33
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
9
-5.04
0.60
118.60
113.56
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
9
2.44
0.30
108.30
110.74
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
9
-4.95
0.70
121.90
116.95
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
9
3.39
0.30
108.30
111.69
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
9
3.66
0.60
118.90
122.56
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
9
-5.47
0.70
121.90
116.43
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
9
6.03
0.30
108.30
114.33
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
9
-5.10
0.70
121.90
116.80
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
9
3.11
0.30
108.30
111.41
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
9
2.54
0.30
108.30
110.84
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
9
-5.04
0.70
121.90
116.86
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
9
3.47
0.30
108.30
111.77
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
9
-4.68
0.70
121.90
117.22
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
9
-4.99
0.70
121.90
116.91
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
9
2.89
0.30
108.30
111.19
B
B
B
O4'
C1'
N9
DA
DA
DA
18
18
18
N
9
-3.44
0.50
117.00
113.56
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
9
3.62
0.50
117.70
121.32
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
9
-5.20
0.60
118.60
113.40
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
10
2.82
0.30
108.30
111.12
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
10
3.85
0.30
108.30
112.15
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
10
3.20
0.30
108.30
111.50
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
10
2.33
0.30
108.30
110.63
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
10
3.65
0.60
118.90
122.55
A
A
A
N1
C2
O2
DC
DC
DC
5
5
5
N
10
-5.28
0.70
121.90
116.62
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
10
2.16
0.30
108.30
110.46
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
10
2.76
0.30
108.30
111.06
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
10
3.27
0.30
108.30
111.57
A
A
A
O4'
C1'
N9
DA
DA
DA
9
9
9
N
10
-3.36
0.50
117.00
113.64
A
A
A
C4
C5
C6
DA
DA
DA
9
9
9
N
10
3.47
0.50
117.70
121.17
A
A
A
C5
C6
N1
DA
DA
DA
9
9
9
N
10
-5.29
0.60
118.60
113.31
A
A
A
N1
C6
N6
DA
DA
DA
9
9
9
N
10
4.84
0.30
108.30
113.14
B
B
B
O4'
C1'
N1
DT
DT
DT
10
10
10
N
10
3.04
0.30
108.30
111.34
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
10
-5.01
0.70
121.90
116.89
B
B
B
N3
C2
O2
DC
DC
DC
11
11
11
N
10
3.35
0.30
108.30
111.65
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
10
3.67
0.60
118.90
122.57
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
10
-5.56
0.70
121.90
116.34
B
B
B
N3
C2
O2
DC
DC
DC
12
12
12
N
10
3.88
0.30
108.30
112.18
B
B
B
O4'
C1'
N1
DC
DC
DC
13
13
13
N
10
-5.20
0.70
121.90
116.70
B
B
B
N3
C2
O2
DC
DC
DC
13
13
13
N
10
2.16
0.30
108.30
110.46
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
10
-4.71
0.70
121.90
117.19
B
B
B
N3
C2
O2
DC
DC
DC
15
15
15
N
10
3.06
0.30
108.30
111.36
B
B
B
O4'
C1'
N1
DC
DC
DC
16
16
16
N
10
-4.95
0.70
121.90
116.95
B
B
B
N3
C2
O2
DC
DC
DC
16
16
16
N
10
-5.12
0.70
121.90
116.78
B
B
B
N3
C2
O2
DC
DC
DC
17
17
17
N
10
2.64
0.30
108.30
110.94
B
B
B
O4'
C1'
N9
DA
DA
DA
18
18
18
N
10
-3.49
0.50
117.00
113.51
B
B
B
C4
C5
C6
DA
DA
DA
18
18
18
N
10
3.80
0.50
117.70
121.50
B
B
B
C5
C6
N1
DA
DA
DA
18
18
18
N
10
-5.14
0.60
118.60
113.46
B
B
B
N1
C6
N6
DA
DA
DA
18
18
18
N
N
NMR structure for Sp1 transcription factor duplex 5'-d(TGGGCGGGA)
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
DT
1
A
N3
DT
1
1_555
B
DA
18
B
N1
DA
9
1_555
hydrog
WATSON-CRICK
A
DT
1
A
O4
DT
1
1_555
B
DA
18
B
N6
DA
9
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
17
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
17
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
17
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
16
B
N3
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
16
B
O2
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
16
B
N4
DC
7
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
15
B
N3
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
15
B
O2
DC
6
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
15
B
N4
DC
6
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
14
B
N1
DG
5
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
14
B
O6
DG
5
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
14
B
N2
DG
5
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
B
DC
13
B
N3
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
B
DC
13
B
O2
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
B
DC
13
B
N4
DC
4
1_555
hydrog
WATSON-CRICK
A
DG
7
A
N1
DG
7
1_555
B
DC
12
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
7
A
N2
DG
7
1_555
B
DC
12
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
7
A
O6
DG
7
1_555
B
DC
12
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N1
DG
8
1_555
B
DC
11
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N2
DG
8
1_555
B
DC
11
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
8
A
O6
DG
8
1_555
B
DC
11
B
N4
DC
2
1_555
hydrog
WATSON-CRICK
A
DA
9
A
N1
DA
9
1_555
B
DT
10
B
N3
DT
1
1_555
hydrog
WATSON-CRICK
A
DA
9
A
N6
DA
9
1_555
B
DT
10
B
O4
DT
1
1_555
DNA
Sp1 Consensus Sequence, DNA
6ED9
PDB
1
1
6ED9
6ED9
PDB
2
1
6ED9
1
9
6ED9
1
9
6ED9
A
1
1
9
10
18
6ED9
10
18
6ED9
B
2
1
9