1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Schmitz, U.
James, T.L.
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 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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
227
510
531
10.1016/0022-2836(92)90904-X
1404366
Solution structure of a DNA octamer containing the Pribnow box via restrained molecular dynamics simulation with distance and torsion angle constraints derived from two-dimensional nuclear magnetic resonance spectral fitting.
1992
10.2210/pdb1d70/pdb
pdb_00001d70
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
2465.653
DNA (5'-D(*GP*TP*AP*TP*AP*AP*TP*G)-3')
1
syn
polymer
2385.605
DNA (5'-D(*CP*AP*TP*TP*AP*TP*AP*C)-3')
1
syn
polymer
no
no
(DG)(DT)(DA)(DT)(DA)(DA)(DT)(DG)
GTATAATG
A
polydeoxyribonucleotide
no
no
(DC)(DA)(DT)(DT)(DA)(DT)(DA)(DC)
CATTATAC
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
-8.359
1
19
A
1
B
16
-3.071
A_DG1:DC16_B
1
-9.580
-0.317
0.408
-0.237
-7.212
1
20
A
2
B
15
-11.324
A_DT2:DA15_B
2
-4.421
-0.639
0.375
-0.047
-4.924
1
20
A
3
B
14
1.855
A_DA3:DT14_B
3
-8.419
0.291
0.394
-0.141
0.863
1
20
A
4
B
13
-3.857
A_DT4:DA13_B
4
-6.615
-0.028
0.384
-0.145
6.261
1
20
A
5
B
12
-1.355
A_DA5:DT12_B
5
-17.009
0.018
0.326
-0.172
2.407
1
20
A
6
B
11
-3.874
A_DA6:DT11_B
6
-13.512
0.065
0.711
-0.233
1.290
1
20
A
7
B
10
3.053
A_DT7:DA10_B
7
-0.898
-0.032
0.519
-0.198
8.762
1
19
A
8
B
9
-2.614
A_DG8:DC9_B
8
-6.196
-0.525
0.363
-0.277
3.235
36.772
A
A
1
2
-5.778
B
B
16
15
3.175
-3.637
-0.442
-1.166
AA_DG1DT2:DA15DC16_BB
1
2.524
-4.010
36.514
-1.362
1.038
2.985
43.844
A
A
2
3
-7.814
B
B
15
14
2.877
-5.816
-0.304
-0.939
AA_DT2DA3:DT14DA15_BB
2
-2.603
3.497
43.401
-0.760
0.184
3.025
32.224
A
A
3
4
-4.600
B
B
14
13
2.985
-2.550
-0.377
-0.453
AA_DA3DT4:DA13DT14_BB
3
-1.545
2.787
32.090
-0.399
0.427
2.694
37.114
A
A
4
5
9.639
B
B
13
12
2.780
6.108
0.147
-0.339
AA_DT4DA5:DT12DA13_BB
4
1.516
-2.392
36.595
-1.220
-0.060
2.880
32.124
A
A
5
6
3.799
B
B
12
11
2.960
2.098
0.162
-0.683
AA_DA5DA6:DT11DT12_BB
5
-3.237
5.864
31.898
-1.570
-0.812
3.342
33.100
A
A
6
7
-10.886
B
B
11
10
3.178
-6.161
0.898
-0.858
AA_DA6DT7:DA10DT11_BB
6
2.754
-4.867
32.424
-0.459
-1.108
2.756
39.669
A
A
7
8
-0.173
B
B
10
9
2.753
-0.118
0.050
-0.911
AA_DT7DG8:DC9DA10_BB
7
0.187
-0.275
39.669
-1.331
-0.055
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1993-04-15
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
Y
BNL
1992-04-15
REL
REL
4
G
1
n
1
DG
1
A
T
2
n
2
DT
2
A
A
3
n
3
DA
3
A
T
4
n
4
DT
4
A
A
5
n
5
DA
5
A
A
6
n
6
DA
6
A
T
7
n
7
DT
7
A
G
8
n
8
DG
8
A
C
9
n
1
DC
9
B
A
10
n
2
DA
10
B
T
11
n
3
DT
11
B
T
12
n
4
DT
12
B
A
13
n
5
DA
13
B
T
14
n
6
DT
14
B
A
15
n
7
DA
15
B
C
16
n
8
DC
16
B
author_defined_assembly
2
dimeric
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
C1'
DT
2
WRONG HAND
1
A
DT
2
0.150
SIDE CHAIN
1
A
DA
3
0.155
SIDE CHAIN
1
A
DA
5
0.094
SIDE CHAIN
1
B
DA
10
0.097
SIDE CHAIN
1
B
DT
11
0.086
SIDE CHAIN
2
A
DT
2
0.083
SIDE CHAIN
2
A
DA
3
0.077
SIDE CHAIN
2
A
DT
4
0.076
SIDE CHAIN
2
A
DA
5
0.106
SIDE CHAIN
2
B
DA
10
0.091
SIDE CHAIN
2
B
DT
11
0.079
SIDE CHAIN
2
B
DA
13
0.061
SIDE CHAIN
3
A
DA
3
0.072
SIDE CHAIN
3
A
DT
4
0.080
SIDE CHAIN
3
A
DA
5
0.111
SIDE CHAIN
3
B
DA
10
0.090
SIDE CHAIN
3
B
DT
11
0.073
SIDE CHAIN
4
A
DA
3
0.069
SIDE CHAIN
4
A
DT
4
0.067
SIDE CHAIN
4
A
DA
5
0.105
SIDE CHAIN
4
B
DA
10
0.085
SIDE CHAIN
4
B
DT
11
0.073
SIDE CHAIN
1
2.31
0.30
108.30
110.61
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
8.18
1.20
115.70
123.88
A
A
A
C5'
C4'
C3'
DT
DT
DT
2
2
2
N
1
12.13
1.40
114.30
126.43
A
A
A
N1
C1'
C2'
DT
DT
DT
2
2
2
N
1
-7.76
0.70
108.00
100.24
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
1
-3.16
0.50
121.30
118.14
A
A
A
C6
N1
C2
DT
DT
DT
2
2
2
N
1
-4.88
0.60
122.90
118.02
A
A
A
C6
C5
C7
DT
DT
DT
2
2
2
N
1
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
3.94
0.30
108.30
112.24
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
5.74
0.30
108.30
114.04
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
1
2.57
0.30
108.30
110.87
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
1
3.39
0.30
108.30
111.69
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
3.78
0.30
108.30
112.08
B
B
B
O4'
C1'
N1
DT
DT
DT
11
11
11
N
1
4.00
0.30
108.30
112.30
B
B
B
O4'
C1'
N1
DT
DT
DT
12
12
12
N
1
-4.84
0.60
122.90
118.06
B
B
B
C6
C5
C7
DT
DT
DT
12
12
12
N
1
2.18
0.30
108.30
110.48
B
B
B
O4'
C1'
N9
DA
DA
DA
13
13
13
N
1
3.02
0.30
108.30
111.32
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
1
3.70
0.30
108.30
112.00
B
B
B
O4'
C1'
N9
DA
DA
DA
15
15
15
N
2
2.78
0.30
108.30
111.08
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
2
2.34
0.30
108.30
110.64
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
2
3.15
0.30
108.30
111.45
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
2
4.34
0.30
108.30
112.64
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
2
-3.67
0.60
122.90
119.23
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
2
2.51
0.30
108.30
110.81
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
2
2.96
0.30
108.30
111.26
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
2
4.31
0.30
108.30
112.61
B
B
B
O4'
C1'
N1
DT
DT
DT
11
11
11
N
2
4.28
0.30
108.30
112.58
B
B
B
O4'
C1'
N1
DT
DT
DT
12
12
12
N
2
-4.63
0.60
122.90
118.27
B
B
B
C6
C5
C7
DT
DT
DT
12
12
12
N
2
3.95
0.30
108.30
112.25
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
2
4.46
0.30
108.30
112.76
B
B
B
O4'
C1'
N9
DA
DA
DA
15
15
15
N
3
3.36
0.30
108.30
111.66
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
3
1.98
0.30
108.30
110.28
A
A
A
O4'
C1'
N1
DT
DT
DT
2
2
2
N
3
2.40
0.30
108.30
110.70
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
3
3.24
0.30
108.30
111.54
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
3
4.95
0.30
108.30
113.25
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
3
-3.95
0.60
122.90
118.95
A
A
A
C6
C5
C7
DT
DT
DT
7
7
7
N
3
2.19
0.30
108.30
110.49
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
3
3.10
0.30
108.30
111.40
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
3
4.36
0.30
108.30
112.66
B
B
B
O4'
C1'
N1
DT
DT
DT
11
11
11
N
3
4.23
0.30
108.30
112.53
B
B
B
O4'
C1'
N1
DT
DT
DT
12
12
12
N
3
-4.48
0.60
122.90
118.42
B
B
B
C6
C5
C7
DT
DT
DT
12
12
12
N
3
3.83
0.30
108.30
112.13
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
3
3.32
0.30
108.30
111.62
B
B
B
O4'
C1'
N9
DA
DA
DA
15
15
15
N
4
3.69
0.30
108.30
111.99
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
4
2.70
0.30
108.30
111.00
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
4
3.11
0.30
108.30
111.41
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
4
5.51
0.30
108.30
113.81
A
A
A
O4'
C1'
N1
DT
DT
DT
7
7
7
N
4
2.80
0.30
108.30
111.10
A
A
A
O4'
C1'
N9
DG
DG
DG
8
8
8
N
4
3.22
0.30
108.30
111.52
B
B
B
O4'
C1'
N1
DC
DC
DC
9
9
9
N
4
4.47
0.30
108.30
112.77
B
B
B
O4'
C1'
N1
DT
DT
DT
11
11
11
N
4
4.48
0.30
108.30
112.78
B
B
B
O4'
C1'
N1
DT
DT
DT
12
12
12
N
4
-4.85
0.60
122.90
118.05
B
B
B
C6
C5
C7
DT
DT
DT
12
12
12
N
4
3.69
0.30
108.30
111.99
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
4
4.27
0.30
108.30
112.57
B
B
B
O4'
C1'
N9
DA
DA
DA
15
15
15
N
refinement
AMBER
SOLUTION STRUCTURE OF A DNA OCTAMER CONTAINING THE PRIBNOW BOX VIA RESTRAINED MOLECULAR DYNAMICS SIMULATION WITH DISTANCE AND TORSION ANGLE CONSTRAINTS DERIVED FROM TWO-DIMENSIONAL NUCLEAR MAGNETIC RESONANCE SPECTRAL FITTING
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
B
DC
16
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
B
DC
16
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
B
DC
16
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DT
2
A
N3
DT
2
1_555
B
DA
15
B
N1
DA
7
1_555
hydrog
WATSON-CRICK
A
DT
2
A
O4
DT
2
1_555
B
DA
15
B
N6
DA
7
1_555
hydrog
WATSON-CRICK
A
DA
3
A
N1
DA
3
1_555
B
DT
14
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
DA
3
A
N6
DA
3
1_555
B
DT
14
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
B
DA
13
B
N1
DA
5
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
B
DA
13
B
N6
DA
5
1_555
hydrog
DA-DT PAIR
A
DA
5
A
N6
DA
5
1_555
B
DT
11
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
B
DT
12
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
B
DT
12
B
O4
DT
4
1_555
hydrog
DA-DA MISPAIR
A
DA
6
A
N6
DA
6
1_555
B
DA
10
B
N1
DA
2
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
B
DT
11
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
B
DT
11
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
DT
7
A
N3
DT
7
1_555
B
DA
10
B
N1
DA
2
1_555
hydrog
WATSON-CRICK
A
DT
7
A
O4
DT
7
1_555
B
DA
10
B
N6
DA
2
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N1
DG
8
1_555
B
DC
9
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
8
A
N2
DG
8
1_555
B
DC
9
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
8
A
O6
DG
8
1_555
B
DC
9
B
N4
DC
1
1_555
DNA
DNA
1D70
PDB
1
1D70
1D70
PDB
2
1D70
1
8
1D70
1
8
1D70
A
1
1
8
9
16
1D70
9
16
1D70
B
2
1
8
1
P 1