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O5'
DG
1
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O5'
DG
1
1
1.00
1
O
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1
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DG
1
1
1.00
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C
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DG
1
1
1.00
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C
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A
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1
1.00
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O
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DG
1
1
1.00
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C
42.70
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1
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A
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1
1
1.00
1
O
38.86
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1
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A
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DG
1
1
1.00
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C
37.68
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A
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DG
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1
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C
35.34
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N9
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ATOM
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N9
DG
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1
1.00
1
N
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C8
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C8
DG
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1
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C
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N7
DG
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ATOM
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N7
DG
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1
1.00
1
N
33.01
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C5
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ATOM
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C5
DG
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1
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C
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C6
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ATOM
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C6
DG
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1
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C
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O6
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ATOM
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1
1.00
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O
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N1
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A
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DG
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1
1.00
1
N
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C2
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C2
DG
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1
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C
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N2
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ATOM
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N2
DG
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1
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1
N
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N3
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ATOM
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N3
DG
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1
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N
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C4
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C4
DG
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1
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C
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P
DG
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ATOM
A
P
DG
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2
1.00
1
P
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OP1
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ATOM
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OP1
DG
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2
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O
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OP2
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ATOM
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OP2
DG
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2
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O
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2
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O
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DG
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2
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C
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ATOM
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DG
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2
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C
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A
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DG
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2
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O
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2
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C
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A
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2
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O
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2
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C
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2
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C
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N9
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N9
DG
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2
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1
N
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C8
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C8
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2
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C
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N7
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ATOM
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N7
DG
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2
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1
N
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C5
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C5
DG
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2
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C
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C6
DG
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2
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C
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A
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1
2
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1
O
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A
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DG
1
2
1.00
1
N
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2
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C
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A
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1
2
1.00
1
N
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N3
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2
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1
N
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ATOM
A
C4
DG
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2
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C
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P
DA
3
ATOM
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P
DA
1
3
1.00
1
P
36.86
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3
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A
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DA
1
3
1.00
1
O
35.32
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3
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A
OP2
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1
3
1.00
1
O
33.37
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3
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1
3
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1
O
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3
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1
3
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1
C
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3
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1
3
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1
C
32.58
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3
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1
3
1.00
1
O
32.68
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3
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A
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1
3
1.00
1
C
34.17
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3
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A
O3'
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1
3
1.00
1
O
28.33
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3
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A
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1
3
1.00
1
C
28.74
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3
ATOM
A
C1'
DA
1
3
1.00
1
C
26.39
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N9
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3
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A
N9
DA
1
3
1.00
1
N
26.84
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C8
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3
ATOM
A
C8
DA
1
3
1.00
1
C
29.89
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N7
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3
ATOM
A
N7
DA
1
3
1.00
1
N
27.18
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C5
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3
ATOM
A
C5
DA
1
3
1.00
1
C
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C6
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3
ATOM
A
C6
DA
1
3
1.00
1
C
28.10
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N6
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3
ATOM
A
N6
DA
1
3
1.00
1
N
27.67
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N1
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3
ATOM
A
N1
DA
1
3
1.00
1
N
26.84
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C2
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3
ATOM
A
C2
DA
1
3
1.00
1
C
25.63
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X
N3
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3
ATOM
A
N3
DA
1
3
1.00
1
N
25.41
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X
C4
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3
ATOM
A
C4
DA
1
3
1.00
1
C
48.48
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BR
CBR
4
HETATM
A
BR
CBR
1
4
0.60
1
BR
38.01
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P
CBR
4
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A
P
CBR
1
4
1.00
1
P
42.49
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4
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A
OP1
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1
4
1.00
1
O
37.96
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OP2
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4
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A
OP2
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1
4
1.00
1
O
37.28
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4
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A
O5'
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1
4
1.00
1
O
37.86
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N1
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4
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N1
CBR
1
4
1.00
1
N
36.06
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C6
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4
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A
C6
CBR
1
4
1.00
1
C
38.03
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C2
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4
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A
C2
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1
4
1.00
1
C
39.42
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O2
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4
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A
O2
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1
4
1.00
1
O
37.11
3.604
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N3
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4
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A
N3
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1
4
1.00
1
N
36.52
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C4
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4
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A
C4
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1
4
1.00
1
C
39.21
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N4
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4
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A
N4
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1
4
1.00
1
N
35.92
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C5
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4
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A
C5
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1
4
1.00
1
C
41.02
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4
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A
C2'
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1
4
1.00
1
C
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4
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C5'
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1
4
1.00
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C
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4
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1
4
1.00
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C
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5.276
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4
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4
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O
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4
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4
1.00
1
C
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4
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1
4
1.00
1
C
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4
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A
O3'
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1
4
1.00
1
O
48.30
7.771
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P
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5
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A
P
DA
1
5
1.00
1
P
50.58
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5
ATOM
A
OP1
DA
1
5
1.00
1
O
48.61
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5
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A
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1
5
1.00
1
O
51.01
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5
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A
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1
5
1.00
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O
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5
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A
C5'
DA
1
5
1.00
1
C
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5
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A
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DA
1
5
1.00
1
C
52.34
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5
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A
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DA
1
5
1.00
1
O
55.56
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5
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A
C3'
DA
1
5
1.00
1
C
57.84
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5
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DA
1
5
1.00
1
O
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5
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A
C2'
DA
1
5
1.00
1
C
53.19
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C1'
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5
ATOM
A
C1'
DA
1
5
1.00
1
C
48.90
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N9
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5
ATOM
A
N9
DA
1
5
1.00
1
N
46.94
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C8
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5
ATOM
A
C8
DA
1
5
1.00
1
C
46.08
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N7
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5
ATOM
A
N7
DA
1
5
1.00
1
N
44.79
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C5
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5
ATOM
A
C5
DA
1
5
1.00
1
C
42.48
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C6
DA
5
ATOM
A
C6
DA
1
5
1.00
1
C
42.68
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X
N6
DA
5
ATOM
A
N6
DA
1
5
1.00
1
N
41.96
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N1
DA
5
ATOM
A
N1
DA
1
5
1.00
1
N
44.52
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C2
DA
5
ATOM
A
C2
DA
1
5
1.00
1
C
47.46
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X
N3
DA
5
ATOM
A
N3
DA
1
5
1.00
1
N
46.92
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C4
DA
5
ATOM
A
C4
DA
1
5
1.00
1
C
59.71
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X
P
DG
6
ATOM
A
P
DG
1
6
1.00
1
P
60.27
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X
OP1
DG
6
ATOM
A
OP1
DG
1
6
1.00
1
O
58.69
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OP2
DG
6
ATOM
A
OP2
DG
1
6
1.00
1
O
58.98
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O5'
DG
6
ATOM
A
O5'
DG
1
6
1.00
1
O
58.85
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C5'
DG
6
ATOM
A
C5'
DG
1
6
1.00
1
C
57.44
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X
C4'
DG
6
ATOM
A
C4'
DG
1
6
1.00
1
C
52.99
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X
O4'
DG
6
ATOM
A
O4'
DG
1
6
1.00
1
O
58.62
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X
C3'
DG
6
ATOM
A
C3'
DG
1
6
1.00
1
C
61.57
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X
O3'
DG
6
ATOM
A
O3'
DG
1
6
1.00
1
O
55.95
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C2'
DG
6
ATOM
A
C2'
DG
1
6
1.00
1
C
52.20
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C1'
DG
6
ATOM
A
C1'
DG
1
6
1.00
1
C
48.69
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N9
DG
6
ATOM
A
N9
DG
1
6
1.00
1
N
50.24
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C8
DG
6
ATOM
A
C8
DG
1
6
1.00
1
C
50.36
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N7
DG
6
ATOM
A
N7
DG
1
6
1.00
1
N
48.28
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C5
DG
6
ATOM
A
C5
DG
1
6
1.00
1
C
48.31
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C6
DG
6
ATOM
A
C6
DG
1
6
1.00
1
C
52.74
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O6
DG
6
ATOM
A
O6
DG
1
6
1.00
1
O
46.80
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N1
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A
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DG
1
6
1.00
1
N
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C2
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1
6
1.00
1
C
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N2
DG
1
6
1.00
1
N
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N3
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1
6
1.00
1
N
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C4
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1
6
1.00
1
C
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7
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A
P
DA
1
7
1.00
1
P
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7
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DA
1
7
1.00
1
O
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7
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1
7
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1
O
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7
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O
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7
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1
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1
C
61.40
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7
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DA
1
7
1.00
1
C
60.45
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7
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1
7
1.00
1
O
60.92
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7
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1
7
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1
C
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7
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1
7
1.00
1
O
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7
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1
7
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1
C
57.42
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7
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A
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DA
1
7
1.00
1
C
50.70
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N9
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A
N9
DA
1
7
1.00
1
N
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C8
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C8
DA
1
7
1.00
1
C
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N7
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ATOM
A
N7
DA
1
7
1.00
1
N
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C5
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A
C5
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1
7
1.00
1
C
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C6
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7
ATOM
A
C6
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1
7
1.00
1
C
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N6
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7
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A
N6
DA
1
7
1.00
1
N
43.86
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N1
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7
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A
N1
DA
1
7
1.00
1
N
45.68
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C2
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7
ATOM
A
C2
DA
1
7
1.00
1
C
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N3
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7
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A
N3
DA
1
7
1.00
1
N
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C4
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ATOM
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C4
DA
1
7
1.00
1
C
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N1
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N1
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1
8
1.00
1
N
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1
8
1.00
1
C
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1
8
1.00
1
N
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1.00
1
C
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C5
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1
8
1.00
1
C
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C6
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1
8
1.00
1
C
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1
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1.00
1
O
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1
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1.00
1
O
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8
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BR
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1
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0.50
1
BR
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8
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1
8
1.00
1
C
53.95
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8
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1
8
1.00
1
C
55.61
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1
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1.00
1
C
56.78
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1
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1.00
1
C
57.00
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1
O
53.97
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O
60.17
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8
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C
61.72
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1
O
62.58
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8
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A
P
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1
8
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1
P
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1
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1.00
1
O
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OP2
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1
8
1.00
1
O
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DG
9
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A
P
DG
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9
1.00
1
P
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ATOM
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OP1
DG
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9
1.00
1
O
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1
9
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1
O
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1
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O
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DG
1
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C
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DG
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9
1.00
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C
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DG
1
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1
O
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DG
1
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C
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DG
1
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1
O
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DG
1
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C
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ATOM
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DG
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1.00
1
C
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N9
DG
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9
1.00
1
N
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ATOM
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C8
DG
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9
1.00
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C
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N7
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ATOM
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N7
DG
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9
1.00
1
N
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C5
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ATOM
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C5
DG
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9
1.00
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C
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C6
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ATOM
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C6
DG
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9
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C
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O6
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ATOM
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O6
DG
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9
1.00
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O
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N1
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ATOM
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N1
DG
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9
1.00
1
N
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C2
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ATOM
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C2
DG
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9
1.00
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C
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N2
DG
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ATOM
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N2
DG
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9
1.00
1
N
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N3
DG
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ATOM
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N3
DG
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9
1.00
1
N
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C4
DG
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ATOM
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C4
DG
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9
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C
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P
DG
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ATOM
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P
DG
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10
1.00
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P
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OP1
DG
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ATOM
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OP1
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10
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O
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OP2
DG
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ATOM
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OP2
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10
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O
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DG
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ATOM
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O5'
DG
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10
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O
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DG
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ATOM
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C5'
DG
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10
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C
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ATOM
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DG
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10
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C
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ATOM
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DG
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10
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O
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ATOM
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C3'
DG
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10
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C
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ATOM
A
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DG
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10
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O
41.02
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ATOM
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DG
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10
1.00
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C
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ATOM
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C1'
DG
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10
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C
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N9
DG
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ATOM
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N9
DG
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10
1.00
1
N
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C8
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ATOM
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C8
DG
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10
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C
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N7
DG
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ATOM
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N7
DG
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10
1.00
1
N
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C5
DG
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ATOM
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C5
DG
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10
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C
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C6
DG
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ATOM
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C6
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10
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C
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O6
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ATOM
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O6
DG
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10
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O
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N1
DG
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ATOM
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N1
DG
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10
1.00
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N
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C2
DG
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ATOM
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C2
DG
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10
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C
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N2
DG
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ATOM
A
N2
DG
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10
1.00
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N
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N3
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ATOM
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N3
DG
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10
1.00
1
N
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C4
DG
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ATOM
A
C4
DG
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10
1.00
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C
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P
DG
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ATOM
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P
DG
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11
1.00
1
P
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OP1
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ATOM
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OP1
DG
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11
1.00
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O
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OP2
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A
OP2
DG
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11
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O
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A
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DG
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11
1.00
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O
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A
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DG
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11
1.00
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C
35.05
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C4'
DG
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ATOM
A
C4'
DG
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11
1.00
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C
33.12
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O4'
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A
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DG
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11
1.00
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O
34.86
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C3'
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A
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DG
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11
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C
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A
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DG
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11
1.00
1
O
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A
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DG
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11
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C
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ATOM
A
C1'
DG
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11
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C
30.56
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N9
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A
N9
DG
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11
1.00
1
N
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C8
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ATOM
A
C8
DG
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11
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C
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N7
DG
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ATOM
A
N7
DG
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11
1.00
1
N
32.30
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C5
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ATOM
A
C5
DG
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11
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C
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C6
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ATOM
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C6
DG
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11
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C
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O6
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ATOM
A
O6
DG
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11
1.00
1
O
31.23
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N1
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ATOM
A
N1
DG
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11
1.00
1
N
33.03
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C2
DG
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ATOM
A
C2
DG
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11
1.00
1
C
34.17
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N2
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ATOM
A
N2
DG
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11
1.00
1
N
32.53
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N3
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A
N3
DG
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11
1.00
1
N
32.38
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C4
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ATOM
A
C4
DG
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11
1.00
1
C
35.59
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P
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ATOM
A
P
DA
1
12
1.00
1
P
36.14
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OP1
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12
ATOM
A
OP1
DA
1
12
1.00
1
O
35.30
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OP2
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12
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A
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DA
1
12
1.00
1
O
37.96
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12
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A
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1
12
1.00
1
O
39.46
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12
ATOM
A
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DA
1
12
1.00
1
C
38.47
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12
ATOM
A
C4'
DA
1
12
1.00
1
C
35.66
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12
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A
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1
12
1.00
1
O
39.31
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12
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A
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DA
1
12
1.00
1
C
45.38
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12
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A
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1
12
1.00
1
O
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C2'
DA
12
ATOM
A
C2'
DA
1
12
1.00
1
C
35.15
-11.249
-49.285
-5.033
X
C1'
DA
12
ATOM
A
C1'
DA
1
12
1.00
1
C
32.29
-10.662
-49.875
-3.797
X
N9
DA
12
ATOM
A
N9
DA
1
12
1.00
1
N
29.14
-11.044
-49.673
-2.530
X
C8
DA
12
ATOM
A
C8
DA
1
12
1.00
1
C
27.94
-10.338
-50.368
-1.699
X
N7
DA
12
ATOM
A
N7
DA
1
12
1.00
1
N
27.55
-9.400
-51.049
-2.399
X
C5
DA
12
ATOM
A
C5
DA
1
12
1.00
1
C
28.98
-8.339
-51.909
-2.095
X
C6
DA
12
ATOM
A
C6
DA
1
12
1.00
1
C
31.92
-7.955
-52.308
-0.881
X
N6
DA
12
ATOM
A
N6
DA
1
12
1.00
1
N
30.66
-7.605
-52.408
-3.106
X
N1
DA
12
ATOM
A
N1
DA
1
12
1.00
1
N
30.86
-7.947
-52.017
-4.350
X
C2
DA
12
ATOM
A
C2
DA
1
12
1.00
1
C
28.81
-8.898
-51.216
-4.729
X
N3
DA
12
ATOM
A
N3
DA
1
12
1.00
1
N
29.76
-9.584
-50.752
-3.720
X
C4
DA
12
ATOM
A
C4
DA
1
12
1.00
1
C
50.88
-13.259
-48.227
-8.824
X
P
DG
13
ATOM
A
P
DG
1
13
1.00
1
P
51.48
-12.132
-48.399
-9.739
X
OP1
DG
13
ATOM
A
OP1
DG
1
13
1.00
1
O
50.22
-14.020
-47.021
-8.477
X
OP2
DG
13
ATOM
A
OP2
DG
1
13
1.00
1
O
51.49
-14.286
-49.464
-8.938
X
O5'
DG
13
ATOM
A
O5'
DG
1
13
1.00
1
O
55.18
7.443
-28.937
-18.407
X
MG
MG
51
HETATM
B
MG
MG
2
1.00
1
MG
37.13
-6.461
-31.854
-21.709
X
O
HOH
52
HETATM
C
O
HOH
3
1.00
1
O
38.58
8.146
-29.117
-4.249
X
O
HOH
53
HETATM
C
O
HOH
3
1.00
1
O
31.41
-4.443
-37.626
-14.788
X
O
HOH
54
HETATM
C
O
HOH
3
1.00
1
O
31.81
-14.148
-51.063
0.175
X
O
HOH
55
HETATM
C
O
HOH
3
1.00
1
O
46.36
5.987
-25.255
-18.380
X
O
HOH
56
HETATM
C
O
HOH
3
1.00
1
O
33.38
-5.409
-53.847
-3.233
X
O
HOH
57
HETATM
C
O
HOH
3
1.00
1
O
45.34
2.988
-25.693
-15.765
X
O
HOH
58
HETATM
C
O
HOH
3
1.00
1
O
32.16
-4.064
-47.931
2.221
X
O
HOH
59
HETATM
C
O
HOH
3
1.00
1
O
42.44
-1.067
-46.474
-0.305
X
O
HOH
60
HETATM
C
O
HOH
3
1.00
1
O
41.65
-10.317
-41.878
-1.234
X
O
HOH
61
HETATM
C
O
HOH
3
1.00
1
O
46.06
1.394
-39.605
-4.871
X
O
HOH
62
HETATM
C
O
HOH
3
1.00
1
O
51.10
-5.252
-27.638
-27.306
X
O
HOH
63
HETATM
C
O
HOH
3
1.00
1
O
45.29
-1.094
-33.794
-10.593
X
O
HOH
64
HETATM
C
O
HOH
3
1.00
1
O
44.22
-2.202
-30.780
-26.404
X
O
HOH
65
HETATM
C
O
HOH
3
1.00
1
O
44.98
-4.973
-38.234
-11.683
X
O
HOH
66
HETATM
C
O
HOH
3
1.00
1
O
53.23
3.226
-26.372
-11.232
X
O
HOH
67
HETATM
C
O
HOH
3
1.00
1
O
49.13
-12.065
-47.257
7.034
X
O
HOH
68
HETATM
C
O
HOH
3
1.00
1
O
45.71
-4.474
-54.361
-5.970
X
O
HOH
69
HETATM
C
O
HOH
3
1.00
1
O
44.94
0.090
-29.433
-25.616
X
O
HOH
70
HETATM
C
O
HOH
3
1.00
1
O
49.09
6.855
-30.558
-17.107
X
O
HOH
71
HETATM
C
O
HOH
3
1.00
1
O
56.23
8.012
-27.332
-19.748
X
O
HOH
72
HETATM
C
O
HOH
3
1.00
1
O
53.40
6.154
-27.502
-17.420
X
O
HOH
73
HETATM
C
O
HOH
3
1.00
1
O
49.40
5.863
-29.693
-19.678
X
O
HOH
74
HETATM
C
O
HOH
3
1.00
1
O
0.5566
-0.0111
0.0606
0.4708
0.0584
0.4257
X
O5'
DG
1
A
O5'
DG
1
O
0.5644
-0.0032
0.0263
0.4917
0.0344
0.4731
X
C5'
DG
1
A
C5'
DG
1
C
0.5590
0.0218
0.0187
0.4897
0.0727
0.4923
X
C4'
DG
1
A
C4'
DG
1
C
0.5736
0.0414
0.0379
0.4678
0.0954
0.4837
X
O4'
DG
1
A
O4'
DG
1
O
0.5591
0.0168
0.0186
0.4887
0.0557
0.5014
X
C3'
DG
1
A
C3'
DG
1
C
0.6079
-0.0099
-0.0126
0.4800
0.0533
0.5341
X
O3'
DG
1
A
O3'
DG
1
O
0.5392
0.0353
0.0265
0.4590
0.0189
0.4781
X
C2'
DG
1
A
C2'
DG
1
C
0.5001
0.0303
0.0068
0.4299
0.0555
0.5014
X
C1'
DG
1
A
C1'
DG
1
C
0.4727
0.0566
-0.0020
0.4034
0.0372
0.4666
X
N9
DG
1
A
N9
DG
1
N
0.4663
0.0507
-0.0068
0.4200
0.0390
0.4613
X
C8
DG
1
A
C8
DG
1
C
0.5041
0.0428
-0.0068
0.3749
0.0037
0.4574
X
N7
DG
1
A
N7
DG
1
N
0.4657
0.0494
-0.0027
0.3339
0.0344
0.4544
X
C5
DG
1
A
C5
DG
1
C
0.4351
0.0449
0.0021
0.3679
0.0377
0.4757
X
C6
DG
1
A
C6
DG
1
C
0.4028
0.0221
-0.0625
0.4435
0.0340
0.5113
X
O6
DG
1
A
O6
DG
1
O
0.4736
0.0524
-0.0159
0.4071
0.0612
0.4700
X
N1
DG
1
A
N1
DG
1
N
0.4846
0.0282
-0.0074
0.4090
0.0362
0.4577
X
C2
DG
1
A
C2
DG
1
C
0.5356
-0.0425
0.0408
0.4983
0.0443
0.4782
X
N2
DG
1
A
N2
DG
1
N
0.4354
0.0230
0.0108
0.3692
0.0417
0.4920
X
N3
DG
1
A
N3
DG
1
N
0.4526
0.0482
0.0044
0.3894
0.0267
0.4797
X
C4
DG
1
A
C4
DG
1
C
0.6052
-0.0151
-0.0119
0.4934
0.0683
0.5014
X
P
DG
2
A
P
DG
2
P
0.6406
-0.0646
-0.0215
0.4667
0.0670
0.5546
X
OP1
DG
2
A
OP1
DG
2
O
0.5274
-0.0456
0.0210
0.4844
0.1571
0.3962
X
OP2
DG
2
A
OP2
DG
2
O
0.5427
0.0083
-0.0081
0.5083
0.0566
0.4401
X
O5'
DG
2
A
O5'
DG
2
O
0.4940
0.0452
-0.0483
0.4460
0.0518
0.4092
X
C5'
DG
2
A
C5'
DG
2
C
0.4988
0.0476
-0.0197
0.4383
0.0381
0.4001
X
C4'
DG
2
A
C4'
DG
2
C
0.5330
0.0513
0.0031
0.4381
0.0313
0.3400
X
O4'
DG
2
A
O4'
DG
2
O
0.4998
0.0353
0.0136
0.4177
0.0097
0.3842
X
C3'
DG
2
A
C3'
DG
2
C
0.4840
0.0472
-0.0273
0.3874
0.0306
0.3972
X
O3'
DG
2
A
O3'
DG
2
O
0.4950
0.0280
0.0052
0.4353
0.0460
0.3113
X
C2'
DG
2
A
C2'
DG
2
C
0.4953
0.0234
0.0197
0.4341
0.0252
0.3206
X
C1'
DG
2
A
C1'
DG
2
C
0.4841
0.0019
0.0120
0.4076
0.0441
0.3284
X
N9
DG
2
A
N9
DG
2
N
0.5189
0.0417
-0.0038
0.3912
0.0317
0.3112
X
C8
DG
2
A
C8
DG
2
C
0.5072
0.0270
-0.0035
0.3867
0.0060
0.3490
X
N7
DG
2
A
N7
DG
2
N
0.4802
0.0439
-0.0060
0.3932
-0.0013
0.3520
X
C5
DG
2
A
C5
DG
2
C
0.4899
0.0362
-0.0122
0.4283
-0.0110
0.3661
X
C6
DG
2
A
C6
DG
2
C
0.5051
0.0952
-0.0406
0.5293
0.0019
0.3638
X
O6
DG
2
A
O6
DG
2
O
0.4831
0.0474
-0.0063
0.4322
-0.0065
0.3661
X
N1
DG
2
A
N1
DG
2
N
0.4749
0.0379
0.0109
0.3667
-0.0527
0.3684
X
C2
DG
2
A
C2
DG
2
C
0.4820
0.0493
0.0132
0.3711
-0.0205
0.4001
X
N2
DG
2
A
N2
DG
2
N
0.4620
0.0399
0.0200
0.3696
-0.0313
0.3398
X
N3
DG
2
A
N3
DG
2
N
0.4601
0.0390
0.0034
0.4067
0.0110
0.3440
X
C4
DG
2
A
C4
DG
2
C
0.5201
0.0399
-0.0445
0.3880
0.0408
0.3877
X
P
DA
3
A
P
DA
3
P
0.5577
0.0063
-0.0373
0.4344
0.0227
0.4083
X
OP1
DA
3
A
OP1
DA
3
O
0.5214
0.0428
-0.0264
0.4243
0.0008
0.3959
X
OP2
DA
3
A
OP2
DA
3
O
0.4525
0.0553
-0.0548
0.4194
0.0307
0.3957
X
O5'
DA
3
A
O5'
DA
3
O
0.4953
0.0340
-0.0278
0.4117
-0.0109
0.3544
X
C5'
DA
3
A
C5'
DA
3
C
0.4996
0.0015
-0.0309
0.4109
-0.0065
0.3645
X
C4'
DA
3
A
C4'
DA
3
C
0.5332
0.0082
-0.0196
0.3773
-0.0160
0.3273
X
O4'
DA
3
A
O4'
DA
3
O
0.5492
0.0291
-0.0040
0.3535
-0.0299
0.3389
X
C3'
DA
3
A
C3'
DA
3
C
0.5546
-0.0115
0.0183
0.4003
0.0057
0.3432
X
O3'
DA
3
A
O3'
DA
3
O
0.4429
0.0194
0.0037
0.3556
-0.0438
0.2778
X
C2'
DA
3
A
C2'
DA
3
C
0.4385
0.0410
-0.0142
0.3524
-0.0472
0.3008
X
C1'
DA
3
A
C1'
DA
3
C
0.3898
0.0381
0.0065
0.3412
-0.0227
0.2714
X
N9
DA
3
A
N9
DA
3
N
0.3203
0.0204
0.0335
0.4171
-0.0472
0.2823
X
C8
DA
3
A
C8
DA
3
C
0.4222
-0.0031
0.0104
0.4179
-0.0230
0.2952
X
N7
DA
3
A
N7
DA
3
N
0.4120
0.0386
0.0019
0.3564
-0.0174
0.2640
X
C5
DA
3
A
C5
DA
3
C
0.4302
0.0482
0.0155
0.3283
-0.0264
0.2782
X
C6
DA
3
A
C6
DA
3
C
0.4578
0.0604
0.0339
0.3560
-0.0186
0.2538
X
N6
DA
3
A
N6
DA
3
N
0.4725
0.0706
0.0156
0.3605
-0.0377
0.2182
X
N1
DA
3
A
N1
DA
3
N
0.4225
0.0516
-0.0522
0.3226
-0.0725
0.2743
X
C2
DA
3
A
C2
DA
3
C
0.4478
0.0357
-0.0020
0.3088
-0.0747
0.2171
X
N3
DA
3
A
N3
DA
3
N
0.4065
0.0546
0.0051
0.2986
-0.0408
0.2602
X
C4
DA
3
A
C4
DA
3
C
0.6609
-0.0507
-0.0606
0.7311
-0.1237
0.4498
X
BR
CBR
4
A
BR
CBR
4
BR
0.6132
-0.0020
0.0126
0.4727
-0.0485
0.3580
X
P
CBR
4
A
P
CBR
4
P
0.6763
0.0020
0.0526
0.5351
-0.0241
0.4029
X
OP1
CBR
4
A
OP1
CBR
4
O
0.6080
-0.0104
-0.0346
0.4987
-0.0273
0.3354
X
OP2
CBR
4
A
OP2
CBR
4
O
0.6220
0.0082
-0.0317
0.4497
-0.1225
0.3444
X
O5'
CBR
4
A
O5'
CBR
4
O
0.5266
-0.0252
-0.0209
0.4254
-0.0157
0.4864
X
N1
CBR
4
A
N1
CBR
4
N
0.4879
-0.0472
-0.0037
0.3863
-0.0085
0.4958
X
C6
CBR
4
A
C6
CBR
4
C
0.5343
-0.0303
0.0104
0.4256
-0.0205
0.4847
X
C2
CBR
4
A
C2
CBR
4
C
0.5885
-0.0019
-0.0157
0.4405
-0.0373
0.4685
X
O2
CBR
4
A
O2
CBR
4
O
0.4922
-0.0346
0.0151
0.4366
0.0098
0.4809
X
N3
CBR
4
A
N3
CBR
4
N
0.5088
-0.0269
0.0088
0.4009
0.0019
0.4778
X
C4
CBR
4
A
C4
CBR
4
C
0.5358
-0.0121
-0.0001
0.4694
-0.0443
0.4843
X
N4
CBR
4
A
N4
CBR
4
N
0.4969
-0.0364
-0.0111
0.3909
-0.0199
0.4766
X
C5
CBR
4
A
C5
CBR
4
C
0.5856
-0.0023
-0.0076
0.4809
-0.0195
0.4919
X
C2'
CBR
4
A
C2'
CBR
4
C
0.6076
-0.0296
-0.0023
0.4288
-0.0760
0.3787
X
C5'
CBR
4
A
C5'
CBR
4
C
0.5890
-0.0024
-0.0133
0.5157
-0.0342
0.4698
X
C4'
CBR
4
A
C4'
CBR
4
C
0.5848
-0.0153
-0.0251
0.5175
-0.0200
0.4771
X
O4'
CBR
4
A
O4'
CBR
4
O
0.5628
-0.0166
-0.0097
0.4845
-0.0346
0.4673
X
C1'
CBR
4
A
C1'
CBR
4
C
0.6046
-0.0043
0.0017
0.5067
-0.0195
0.4934
X
C3'
CBR
4
A
C3'
CBR
4
C
0.6148
0.0074
0.0292
0.5776
-0.0305
0.5614
X
O3'
CBR
4
A
O3'
CBR
4
O
0.6212
0.0231
0.0173
0.6019
-0.0606
0.6119
X
P
DA
5
A
P
DA
5
P
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0.4168
-0.0715
0.4051
X
O6
DG
10
A
O6
DG
10
O
0.4428
-0.0461
0.0216
0.3764
-0.0212
0.4317
X
N1
DG
10
A
N1
DG
10
N
0.4556
-0.0299
0.0223
0.4175
-0.0116
0.4713
X
C2
DG
10
A
C2
DG
10
C
0.5232
-0.0082
0.0271
0.4629
0.0099
0.4757
X
N2
DG
10
A
N2
DG
10
N
0.4885
-0.0151
-0.0003
0.3977
-0.0137
0.4543
X
C4
DG
10
A
C4
DG
10
C
0.6090
0.0115
0.0406
0.5156
-0.0538
0.5322
X
P
DG
11
A
P
DG
11
P
0.6380
0.0179
0.0219
0.5223
-0.0518
0.5447
X
OP1
DG
11
A
OP1
DG
11
O
0.5851
0.0010
0.0346
0.5006
-0.0803
0.5104
X
OP2
DG
11
A
OP2
DG
11
O
0.6207
-0.0136
0.0359
0.4900
-0.0252
0.4772
X
O5'
DG
11
A
O5'
DG
11
O
0.5532
-0.0244
0.0168
0.4380
-0.0190
0.4672
X
C5'
DG
11
A
C5'
DG
11
C
0.4668
-0.0240
0.0096
0.4439
-0.0148
0.4208
X
C4'
DG
11
A
C4'
DG
11
C
0.4980
-0.0423
0.0147
0.4176
-0.0049
0.3424
X
O4'
DG
11
A
O4'
DG
11
O
0.5022
-0.0175
-0.0021
0.4084
0.0021
0.4136
X
C3'
DG
11
A
C3'
DG
11
C
0.5160
-0.0377
-0.0324
0.4142
-0.0120
0.4233
X
O3'
DG
11
A
O3'
DG
11
O
0.4557
-0.0322
0.0043
0.3741
-0.0320
0.3667
X
C2'
DG
11
A
C2'
DG
11
C
0.4563
-0.0518
0.0164
0.3964
-0.0248
0.3433
X
C1'
DG
11
A
C1'
DG
11
C
0.4177
-0.0511
0.0111
0.3817
0.0015
0.3615
X
N9
DG
11
A
N9
DG
11
N
0.4099
-0.0608
0.0127
0.3740
0.0046
0.3545
X
C8
DG
11
A
C8
DG
11
C
0.4322
-0.0588
0.0027
0.4020
-0.0221
0.3699
X
N7
DG
11
A
N7
DG
11
N
0.4630
-0.0408
0.0269
0.3936
-0.0068
0.3705
X
C5
DG
11
A
C5
DG
11
C
0.4695
-0.0634
0.0062
0.3810
-0.0113
0.3963
X
C6
DG
11
A
C6
DG
11
C
0.5248
-0.0820
-0.0210
0.4763
-0.0649
0.4189
X
O6
DG
11
A
O6
DG
11
O
0.4370
-0.0886
-0.0165
0.3627
-0.0326
0.3866
X
N1
DG
11
A
N1
DG
11
N
0.4623
-0.0175
-0.0021
0.4072
-0.0135
0.3853
X
C2
DG
11
A
C2
DG
11
C
0.4503
-0.0329
-0.0057
0.4684
-0.0052
0.3794
X
N2
DG
11
A
N2
DG
11
N
0.4768
-0.0197
-0.0010
0.4098
0.0065
0.3492
X
N3
DG
11
A
N3
DG
11
N
0.4380
-0.0364
-0.0041
0.4140
-0.0049
0.3779
X
C4
DG
11
A
C4
DG
11
C
0.5070
-0.0304
-0.0566
0.4416
0.0010
0.4036
X
P
DA
12
A
P
DA
12
P
0.4779
-0.0452
-0.0535
0.4422
0.0318
0.4527
X
OP1
DA
12
A
OP1
DA
12
O
0.4651
-0.0344
-0.0346
0.4387
-0.0023
0.4373
X
OP2
DA
12
A
OP2
DA
12
O
0.5112
-0.0570
-0.0250
0.4931
0.0030
0.4377
X
O5'
DA
12
A
O5'
DA
12
O
0.5511
-0.0381
-0.0151
0.5021
0.0154
0.4459
X
C5'
DA
12
A
C5'
DA
12
C
0.5182
-0.0241
-0.0322
0.5166
0.0296
0.4268
X
C4'
DA
12
A
C4'
DA
12
C
0.5332
-0.0274
-0.0276
0.4496
0.0460
0.3718
X
O4'
DA
12
A
O4'
DA
12
O
0.5514
0.0119
-0.0480
0.5281
0.0130
0.4140
X
C3'
DA
12
A
C3'
DA
12
C
0.6622
0.0043
-0.0359
0.6309
0.0562
0.4308
X
O3'
DA
12
A
O3'
DA
12
O
0.5047
-0.0291
-0.0269
0.5362
0.0296
0.3058
X
C2'
DA
12
A
C2'
DA
12
C
0.5123
-0.0161
-0.0388
0.4743
0.0285
0.3489
X
C1'
DA
12
A
C1'
DA
12
C
0.4280
-0.0149
-0.0289
0.4686
-0.0043
0.3300
X
N9
DA
12
A
N9
DA
12
N
0.3956
-0.0310
-0.0439
0.4054
-0.0255
0.3060
X
C8
DA
12
A
C8
DA
12
C
0.3663
-0.0507
-0.0538
0.3978
-0.0434
0.2973
X
N7
DA
12
A
N7
DA
12
N
0.4041
-0.0612
-0.0284
0.3783
-0.0222
0.2640
X
C5
DA
12
A
C5
DA
12
C
0.4430
-0.0513
-0.0140
0.3634
0.0119
0.2945
X
C6
DA
12
A
C6
DA
12
C
0.4857
-0.0644
0.0060
0.4550
0.0115
0.2717
X
N6
DA
12
A
N6
DA
12
N
0.4881
-0.0439
-0.0021
0.4266
0.0428
0.2501
X
N1
DA
12
A
N1
DA
12
N
0.4627
-0.0071
-0.0549
0.4191
0.0305
0.2907
X
C2
DA
12
A
C2
DA
12
C
0.4187
-0.0166
-0.0458
0.4394
0.0390
0.2363
X
N3
DA
12
A
N3
DA
12
N
0.4350
-0.0289
-0.0417
0.4108
0.0035
0.2849
X
C4
DA
12
A
C4
DA
12
C
0.7961
0.0222
-0.0441
0.7085
0.0923
0.4285
X
P
DG
13
A
P
DG
13
P
0.8111
0.0031
-0.0160
0.7016
0.0819
0.4431
X
OP1
DG
13
A
OP1
DG
13
O
0.8233
0.0549
-0.0816
0.6929
0.1394
0.3918
X
OP2
DG
13
A
OP2
DG
13
O
0.7917
-0.0062
-0.0746
0.7740
-0.0040
0.3903
X
O5'
DG
13
A
O5'
DG
13
O
0.7474
-0.0296
-0.0065
0.7019
0.0419
0.6472
X
MG
MG
51
B
MG
MG
MG
0.6541
0.0434
0.0121
0.4300
-0.0141
0.3265
X
O
HOH
52
C
O
HOH
O
0.6066
-0.0696
-0.0480
0.4951
-0.0443
0.3639
X
O
HOH
53
C
O
HOH
O
0.5690
0.0909
0.0544
0.3033
0.0161
0.3209
X
O
HOH
54
C
O
HOH
O
0.5667
-0.0299
0.0610
0.3448
-0.0344
0.2970
X
O
HOH
55
C
O
HOH
O
0.6356
-0.0472
-0.0767
0.5290
0.0156
0.5966
X
O
HOH
56
C
O
HOH
O
0.5607
-0.1198
0.1178
0.3791
-0.0194
0.3284
X
O
HOH
57
C
O
HOH
O
0.7227
-0.0636
0.0256
0.4427
-0.0615
0.5572
X
O
HOH
58
C
O
HOH
O
0.4516
0.0287
0.0255
0.5305
0.1014
0.2396
X
O
HOH
59
C
O
HOH
O
0.6522
0.0688
-0.0051
0.6278
0.0888
0.3323
X
O
HOH
60
C
O
HOH
O
0.6243
0.0003
0.1351
0.5039
-0.0111
0.4540
X
O
HOH
61
C
O
HOH
O
0.6045
-0.0737
0.1005
0.6139
0.0421
0.5316
X
O
HOH
62
C
O
HOH
O
0.6152
0.0239
0.0010
0.7554
0.0115
0.5708
X
O
HOH
63
C
O
HOH
O
0.7584
-0.0035
-0.0216
0.6726
0.1498
0.2896
X
O
HOH
64
C
O
HOH
O
0.7333
0.0294
-0.0266
0.6361
0.0728
0.3105
X
O
HOH
65
C
O
HOH
O
0.5913
0.0141
-0.0353
0.6051
-0.1318
0.5125
X
O
HOH
66
C
O
HOH
O
0.7688
-0.0807
-0.0176
0.6987
-0.0190
0.5547
X
O
HOH
67
C
O
HOH
O
0.6763
-0.1058
0.0310
0.6506
0.0035
0.5394
X
O
HOH
68
C
O
HOH
O
0.5765
-0.1992
0.0294
0.6152
-0.0326
0.5448
X
O
HOH
69
C
O
HOH
O
0.6289
0.1422
0.0164
0.6015
0.0581
0.4768
X
O
HOH
70
C
O
HOH
O
0.6464
-0.0328
0.0068
0.6981
-0.0114
0.5205
X
O
HOH
71
C
O
HOH
O
0.7408
-0.0720
-0.0007
0.7143
0.0452
0.6813
X
O
HOH
72
C
O
HOH
O
0.7161
-0.0511
-0.0298
0.7013
0.0120
0.6112
X
O
HOH
73
C
O
HOH
O
0.6951
-0.0344
0.0254
0.5697
0.0891
0.6119
X
O
HOH
74
C
O
HOH
O
0.024612
0.014210
0.000000
0.000000
0.028420
0.000000
0.000000
0.000000
0.018093
0.00000
0.00000
0.00000
Paukstelis, P.J.
Nowakowski, J.
Birktoft, J.J.
Seeman, N.C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
40.630
40.630
55.270
C9 H12 Br N2 O8 P
387.078
n
5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
DNA linking
C9 H13 Br N3 O7 P
386.093
n
5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
H2 O
18.015
WATER
non-polymer
Mg 2
24.305
MAGNESIUM ION
non-polymer
N
1
N
N
N
2
N
C
N
3
N
N
N
4
N
C
N
5
N
C
N
6
N
C
N
7
N
O
N
8
N
O
N
9
N
BR
N
10
R
C
N
11
N
C
N
12
S
C
N
13
R
C
N
14
N
O
N
15
N
O
N
16
N
C
N
17
N
O
N
18
N
P
N
19
N
O
N
20
N
O
N
21
N
O
N
22
N
H
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
BR
N
35
N
P
N
36
N
O
N
37
N
O
N
38
N
O
N
39
N
N
N
40
N
C
N
41
N
C
N
42
N
O
N
43
N
N
N
44
N
C
N
45
N
N
N
46
N
C
N
47
N
C
N
48
N
C
N
49
R
C
N
50
N
O
N
51
R
C
N
52
S
C
N
53
N
O
N
54
N
O
N
55
N
H
N
56
N
H
N
57
N
H
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
O
N
69
N
P
N
70
N
O
N
71
N
O
N
72
N
O
N
73
N
C
N
74
R
C
N
75
N
O
N
76
S
C
N
77
N
O
N
78
N
C
N
79
R
C
Y
80
N
N
Y
81
N
C
Y
82
N
N
Y
83
N
C
Y
84
N
C
N
85
N
N
Y
86
N
N
Y
87
N
C
Y
88
N
N
Y
89
N
C
N
90
N
H
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
O
N
105
N
P
N
106
N
O
N
107
N
O
N
108
N
O
N
109
N
C
N
110
R
C
N
111
N
O
N
112
S
C
N
113
N
O
N
114
N
C
N
115
R
C
Y
116
N
N
Y
117
N
C
Y
118
N
N
Y
119
N
C
N
120
N
C
N
121
N
O
N
122
N
N
N
123
N
C
N
124
N
N
N
125
N
N
Y
126
N
C
N
127
N
H
N
128
N
H
N
129
N
H
N
130
N
H
N
131
N
H
N
132
N
H
N
133
N
H
N
134
N
H
N
135
N
H
N
136
N
H
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
O
N
142
N
H
N
143
N
H
N
144
N
MG
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
doub
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
doub
N
10
N
doub
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
doub
N
31
N
sing
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
doub
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
N
46
N
sing
N
47
N
doub
N
48
N
sing
N
49
N
doub
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
sing
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
doub
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
Y
93
N
sing
Y
94
N
sing
Y
95
N
doub
N
96
N
sing
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
doub
N
102
N
sing
N
103
N
sing
Y
104
N
sing
Y
105
N
doub
N
106
N
sing
Y
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
Y
131
N
sing
Y
132
N
sing
Y
133
N
doub
N
134
N
sing
Y
135
N
sing
N
136
N
sing
Y
137
N
doub
N
138
N
doub
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
sing
N
143
N
doub
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
sing
UK
Chem.Biol.
CBOLE2
2050
1074-5521
11
1119
1126
10.1016/j.chembiol.2004.05.021
15324813
Crystal structure of a continuous three-dimensional DNA lattice.
2004
10.2210/pdb1p1y/pdb
pdb_00001p1y
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
2002-08-04
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
0.92002
1.0
X8C
NSLS
0.92002
SYNCHROTRON
NSLS BEAMLINE X8C
4249.451
5'-D(*GP*GP*AP*(CBR)P*AP*GP*AP*(BRU)P*GP*GP*GP*AP*G)-3'
1
syn
polymer
24.305
MAGNESIUM ION
1
syn
non-polymer
18.015
water
23
nat
water
no
yes
(DG)(DG)(DA)(CBR)(DA)(DG)(DA)(BRU)(DG)(DG)(DG)(DA)(DG)
GGACAGAUGGGAG
X
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
1
2.97
58.52
VAPOR DIFFUSION, SITTING DROP
magnesium formate, mpd, lithium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 295.5K
295.5
magnesium formate
1
mpd
1
LiCl
1
mpd
2
LiCl
2
-2.683
4
7
X
1
X
10
-112.497
X_DG1:DG10_X
1
-6.650
-5.716
-0.213
-0.518
-0.455
12
4
X
2
X
11
174.581
X_DG2:DG11_X
2
24.789
3.179
-0.574
8.009
-7.038
7
2
X
3
X
12
-179.699
X_DA3:DA12_X
3
29.923
-5.402
0.167
5.487
-3.306
172.650
X
X
1
2
68.114
X
X
10
11
1.701
131.801
4.877
-0.870
XX_DG1DG2:DG11DG10_XX
1
-111.194
57.465
26.996
0.048
-2.035
4.480
173.704
X
X
2
3
0.875
X
X
11
12
4.480
1.746
0.032
0.071
XX_DG2DA3:DA12DG11_XX
2
-0.242
0.121
173.703
0.034
-0.016
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Non-polymer description
Data collection
Database references
Derived calculations
1
0
2004-06-01
1
1
2008-04-29
1
2
2011-07-13
1
3
2011-11-02
1
4
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2003-04-14
REL
REL
MG
MAGNESIUM ION
HOH
water
MO4
51
2
MG
MG
51
X
HOH
1
3
HOH
HOH
52
X
HOH
2
3
HOH
HOH
53
X
HOH
3
3
HOH
HOH
54
X
HOH
4
3
HOH
HOH
55
X
HOH
5
3
HOH
HOH
56
X
HOH
6
3
HOH
HOH
57
X
HOH
7
3
HOH
HOH
58
X
HOH
8
3
HOH
HOH
59
X
HOH
9
3
HOH
HOH
60
X
HOH
11
3
HOH
HOH
61
X
HOH
13
3
HOH
HOH
62
X
HOH
14
3
HOH
HOH
63
X
HOH
15
3
HOH
HOH
64
X
HOH
20
3
HOH
HOH
65
X
HOH
22
3
HOH
HOH
66
X
HOH
23
3
HOH
HOH
67
X
HOH
25
3
HOH
HOH
68
X
HOH
26
3
HOH
HOH
69
X
HOH
27
3
HOH
HOH
70
X
MO4
51
3
HOH
HOH
71
X
MO4
51
3
HOH
HOH
72
X
MO4
51
3
HOH
HOH
73
X
MO4
51
3
HOH
HOH
74
X
G
1
n
1
DG
1
X
G
2
n
2
DG
2
X
A
3
n
3
DA
3
X
CBR
4
n
4
CBR
4
X
A
5
n
5
DA
5
X
G
6
n
6
DG
6
X
A
7
n
7
DA
7
X
BRU
8
n
8
BRU
8
X
G
9
n
9
DG
9
X
G
10
n
10
DG
10
X
G
11
n
11
DG
11
X
A
12
n
12
DA
12
X
G
13
n
13
DG
13
X
author_defined_assembly
2
dimeric
X
HOH
71
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
72
C
O
HOH
1_555
178.7
X
HOH
71
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
73
C
O
HOH
1_555
93.5
X
HOH
72
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
73
C
O
HOH
1_555
87.0
X
HOH
71
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
74
C
O
HOH
1_555
83.8
X
HOH
72
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
74
C
O
HOH
1_555
95.0
X
HOH
73
C
O
HOH
1_555
X
MG
51
B
MG
MG
1_555
X
HOH
74
C
O
HOH
1_555
93.7
X
CBR
4
A
CBR
4
DC
X
BRU
8
A
BRU
8
DU
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_435
-x-1,-y-2,z
crystal symmetry operation
0.0000000000
-70.3732243115
0.0000000000
1
X
C5'
DG
13
A
C5'
DG
13
1
Y
1
X
C4'
DG
13
A
C4'
DG
13
1
Y
1
X
O4'
DG
13
A
O4'
DG
13
1
Y
1
X
C3'
DG
13
A
C3'
DG
13
1
Y
1
X
O3'
DG
13
A
O3'
DG
13
1
Y
1
X
C2'
DG
13
A
C2'
DG
13
1
Y
1
X
C1'
DG
13
A
C1'
DG
13
1
Y
1
X
N9
DG
13
A
N9
DG
13
1
Y
1
X
C8
DG
13
A
C8
DG
13
1
Y
1
X
N7
DG
13
A
N7
DG
13
1
Y
1
X
C5
DG
13
A
C5
DG
13
1
Y
1
X
C6
DG
13
A
C6
DG
13
1
Y
1
X
O6
DG
13
A
O6
DG
13
1
Y
1
X
N1
DG
13
A
N1
DG
13
1
Y
1
X
C2
DG
13
A
C2
DG
13
1
Y
1
X
N2
DG
13
A
N2
DG
13
1
Y
1
X
N3
DG
13
A
N3
DG
13
1
Y
1
X
C4
DG
13
A
C4
DG
13
1
Y
1
1.89
0.30
108.30
110.19
X
X
X
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
-6.15
0.80
105.90
99.75
X
X
X
O4'
C1'
C2'
DG
DG
DG
2
2
2
N
1
-7.70
0.40
104.50
96.80
X
X
X
O4'
C4'
C3'
DA
DA
DA
3
3
3
N
1
8.69
0.70
110.30
118.99
X
X
X
C1'
O4'
C4'
DA
DA
DA
3
3
3
N
1
-7.51
0.80
105.90
98.39
X
X
X
O4'
C1'
C2'
DA
DA
DA
3
3
3
N
1
-8.35
0.70
108.00
99.65
X
X
X
O4'
C1'
N9
DA
DA
DA
3
3
3
N
1
-4.12
0.50
129.30
125.18
X
X
X
N1
C2
N3
DA
DA
DA
3
3
3
N
1
6.07
0.50
110.60
116.67
X
X
X
C2
N3
C4
DA
DA
DA
3
3
3
N
1
-3.12
0.50
110.70
107.58
X
X
X
C4
C5
N7
DA
DA
DA
5
5
5
N
1
-4.41
0.60
118.60
114.19
X
X
X
N1
C6
N6
DA
DA
DA
5
5
5
N
1
-5.79
0.80
102.40
96.61
X
X
X
C3'
C2'
C1'
DG
DG
DG
6
6
6
N
1
5.93
0.30
108.30
114.23
X
X
X
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
-3.87
0.60
123.90
120.03
X
X
X
N1
C2
N3
DG
DG
DG
6
6
6
N
1
2.92
0.30
108.30
111.22
X
X
X
O4'
C1'
N9
DA
DA
DA
7
7
7
N
1
-8.92
0.80
102.40
93.48
X
X
X
C3'
C2'
C1'
DG
DG
DG
9
9
9
N
1
2.49
0.30
108.30
110.79
X
X
X
O4'
C1'
N9
DG
DG
DG
9
9
9
N
1
-3.84
0.60
128.60
124.76
X
X
X
C5
C6
O6
DG
DG
DG
9
9
9
N
1
-2.80
0.40
104.50
101.70
X
X
X
O4'
C4'
C3'
DG
DG
DG
11
11
11
N
1
4.44
0.70
110.30
114.74
X
X
X
C1'
O4'
C4'
DG
DG
DG
11
11
11
N
1
-6.42
0.60
119.90
113.48
X
X
X
N1
C6
O6
DG
DG
DG
11
11
11
N
1
3.61
0.60
128.60
132.21
X
X
X
C5
C6
O6
DG
DG
DG
11
11
11
N
1
8.02
1.20
110.70
118.72
X
X
X
O5'
P
OP1
DA
DA
DA
12
12
12
N
1
-3.41
0.50
110.70
107.29
X
X
X
C4
C5
N7
DA
DA
DA
12
12
12
N
1
4.54
0.50
103.90
108.44
X
X
X
C5
N7
C8
DA
DA
DA
12
12
12
N
1
-4.03
0.60
118.60
114.57
X
X
X
N1
C6
N6
DA
DA
DA
12
12
12
N
1
10.52
1.50
119.60
130.12
X
X
X
OP1
P
OP2
DG
DG
DG
13
13
13
N
1
X
X
N3
C4
DA
DA
3
3
-0.048
0.006
1.344
1.296
N
1
X
X
O3'
C3'
DG
DG
9
9
-0.041
0.006
1.419
1.378
N
1
X
X
N3
C4
DA
DA
12
12
-0.039
0.006
1.344
1.305
N
39.727
-1.50
-0.75
0.00
-1.50
0.00
2.24
0.956
0.940
0.23256
0.20332
0.20485
0.20485
2.10
35.14
161
2907
2870
5.3
98.70
3.627
0.096
RANDOM
1
THROUGHOUT
2
SAD
0.163
0.156
0.80
0.80
1.40
MAXIMUM LIKELIHOOD WITH PHASES
BABINET MODEL WITH MASK
2.10
35.14
23
281
1
257
0
0.020
0.021
292
3.133
3.000
451
0.120
0.200
36
0.013
0.020
142
0.381
0.200
74
0.187
0.200
11
0.113
0.200
20
0.065
0.200
5
0.258
0.228
2.155
16
217
20
1.8
50
1P1Y
5957
3066
0
0.071
0.071
1
20.7
99
0.22
2.10
2.18
13.76
307
1
99.4
refinement
REFMAC
5.1.24
data reduction
HKL-2000
data scaling
SCALEPACK
phasing
CNS
Crystal structure of a continuous three-dimensional DNA lattice from d(GGACAGATGGGAG)
1
N
N
2
N
N
3
N
N
covale
1.595
both
X
DA
3
A
O3'
DA
3
1_555
X
CBR
4
A
P
CBR
4
1_555
covale
1.593
both
X
CBR
4
A
O3'
CBR
4
1_555
X
DA
5
A
P
DA
5
1_555
covale
1.574
both
X
DA
7
A
O3'
DA
7
1_555
X
BRU
8
A
P
BRU
8
1_555
covale
1.565
both
X
BRU
8
A
O3'
BRU
8
1_555
X
DG
9
A
P
DG
9
1_555
metalc
2.159
X
MG
51
B
MG
MG
1_555
X
HOH
71
C
O
HOH
1_555
metalc
2.168
X
MG
51
B
MG
MG
1_555
X
HOH
72
C
O
HOH
1_555
metalc
2.167
X
MG
51
B
MG
MG
1_555
X
HOH
73
C
O
HOH
1_555
metalc
2.164
X
MG
51
B
MG
MG
1_555
X
HOH
74
C
O
HOH
1_555
hydrog
TYPE_7_PAIR
X
DG
1
A
N7
DG
1
1_555
X
DG
10
A
N1
DG
10
6_454
hydrog
TYPE_7_PAIR
X
DG
1
A
O6
DG
1
1_555
X
DG
10
A
N2
DG
10
6_454
hydrog
TYPE_4_PAIR
X
DG
2
A
N2
DG
2
1_555
X
DG
11
A
N3
DG
11
6_454
hydrog
TYPE_4_PAIR
X
DG
2
A
N3
DG
2
1_555
X
DG
11
A
N2
DG
11
6_454
hydrog
TYPE_2_PAIR
X
DA
3
A
N6
DA
3
1_555
X
DA
12
A
N7
DA
12
6_454
hydrog
TYPE_2_PAIR
X
DA
3
A
N7
DA
3
1_555
X
DA
12
A
N6
DA
12
6_454
DNA
continuous three-dimensional dna lattice, parallel-stranded base pairs, DNA
1P1Y
PDB
1
1P1Y
1
13
1P1Y
1
13
1P1Y
X
1
1
13
BINDING SITE FOR RESIDUE MG X 51
X
MG
51
Software
4
X
HOH
71
C
HOH
4
1_555
X
HOH
72
C
HOH
4
1_555
X
HOH
73
C
HOH
4
1_555
X
HOH
74
C
HOH
4
1_555
172
P 64