11.47
5.286
15.334
-8.558
A
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1
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1
1
1.00
1
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11.29
4.364
14.254
-8.688
A
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1
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A
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DC
1
1
1.00
1
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12.66
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-7.469
A
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1
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A
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DC
1
1
1.00
1
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11.71
4.319
13.900
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A
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1
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A
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1
1
1.00
1
O
13.42
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A
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1
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A
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DC
1
1
1.00
1
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12.69
1.458
15.341
-7.895
A
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1
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A
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DC
1
1
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1
O
14.07
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15.354
-5.683
A
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1
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A
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DC
1
1
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1
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13.72
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A
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1
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A
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DC
1
1
1.00
1
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10.68
4.843
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-4.578
A
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1
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A
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DC
1
1
1.00
1
N
12.89
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A
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1
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A
C2
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1
1
1.00
1
C
14.45
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1
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A
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1
1
1.00
1
O
10.15
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A
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1
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A
N3
DC
1
1
1.00
1
N
11.76
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A
C4
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1
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A
C4
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1
1
1.00
1
C
9.96
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A
N4
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1
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A
N4
DC
1
1
1.00
1
N
12.96
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A
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1
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A
C5
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1
1
1.00
1
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11.84
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1
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A
C6
DC
1
1
1.00
1
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20.79
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2
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A
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DC
1
2
1.00
1
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21.07
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2
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A
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DC
1
2
1.00
1
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20.58
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2
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1
2
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19.94
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2
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1
2
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24.47
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2
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A
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1
2
1.00
1
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27.01
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2
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A
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1
2
1.00
1
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26.59
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2
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1
2
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27.98
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2
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A
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1
2
1.00
1
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19.51
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2
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1
2
1.00
1
O
23.87
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2
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A
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1
2
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1
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18.98
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-3.714
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2
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A
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1
2
1.00
1
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17.70
0.208
20.263
-3.776
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2
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A
N1
DC
1
2
1.00
1
N
14.24
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-2.554
A
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2
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A
C2
DC
1
2
1.00
1
C
17.45
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20.425
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2
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A
O2
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1
2
1.00
1
O
15.67
1.858
21.479
-2.605
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N3
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2
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A
N3
DC
1
2
1.00
1
N
22.37
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21.789
-3.735
A
C4
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2
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A
C4
DC
1
2
1.00
1
C
16.31
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-3.705
A
N4
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2
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A
N4
DC
1
2
1.00
1
N
30.88
1.968
21.325
-4.990
A
C5
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2
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A
C5
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1
2
1.00
1
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28.89
0.850
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-4.930
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2
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A
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1
2
1.00
1
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24.91
-5.238
18.552
-3.885
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3
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A
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1
3
1.00
1
P
32.22
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-3.352
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3
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A
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1
3
1.00
1
O
28.64
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-5.038
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3
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1
3
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22.35
-4.948
19.560
-2.650
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3
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1
3
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22.08
-4.642
18.982
-1.370
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3
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1
3
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1
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21.06
-4.557
20.134
-0.394
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3
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1
3
1.00
1
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20.15
-3.355
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-0.624
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3
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1
3
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18.90
-5.656
21.179
-0.502
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3
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1
3
1.00
1
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22.00
-5.937
21.721
0.752
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3
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1
3
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1
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23.36
-5.076
22.268
-1.391
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3
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1
3
1.00
1
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19.79
-3.684
22.298
-0.766
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3
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1
3
1.00
1
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21.23
-2.565
22.903
-1.511
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3
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A
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DT
1
3
1.00
1
N
15.47
-1.496
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-0.759
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3
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A
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1
3
1.00
1
C
18.46
-1.447
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3
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A
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1
3
1.00
1
O
13.69
-0.488
23.900
-1.480
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3
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A
N3
DT
1
3
1.00
1
N
12.99
-0.400
24.061
-2.840
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3
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1
3
1.00
1
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19.86
0.580
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-3.331
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3
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1
3
1.00
1
O
16.74
-1.550
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-3.567
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3
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A
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1
3
1.00
1
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26.96
-1.471
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-5.060
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C7
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3
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A
C7
DT
1
3
1.00
1
C
17.53
-2.556
23.028
-2.888
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C6
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3
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A
C6
DT
1
3
1.00
1
C
23.84
-7.334
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1.507
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4
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A
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1
4
1.00
1
P
26.35
-7.804
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1.799
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4
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A
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DA
1
4
1.00
1
O
21.20
-8.210
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0.854
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4
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1
4
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O
23.33
-6.890
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2.922
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4
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1
4
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O
24.73
-5.878
21.764
3.693
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4
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1
4
1.00
1
C
21.11
-5.235
22.845
4.536
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4
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1
4
1.00
1
C
18.05
-4.313
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3.731
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4
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1
4
1.00
1
O
18.06
-6.210
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5.123
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4
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A
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DA
1
4
1.00
1
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15.24
-5.722
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6.373
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4
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A
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1
4
1.00
1
O
19.69
-6.218
24.972
4.104
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4
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A
C2'
DA
1
4
1.00
1
C
15.25
-4.789
24.972
3.626
A
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4
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A
C1'
DA
1
4
1.00
1
C
15.36
-4.561
25.296
2.204
A
N9
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4
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A
N9
DA
1
4
1.00
1
N
17.12
-5.463
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1.187
A
C8
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4
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A
C8
DA
1
4
1.00
1
C
16.28
-5.003
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0.028
A
N7
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4
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A
N7
DA
1
4
1.00
1
N
14.82
-3.748
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0.263
A
C5
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4
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A
C5
DA
1
4
1.00
1
C
14.95
-2.764
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-0.565
A
C6
DA
4
ATOM
A
C6
DA
1
4
1.00
1
C
16.33
-2.936
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-1.894
A
N6
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4
ATOM
A
N6
DA
1
4
1.00
1
N
11.94
-1.627
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0.013
A
N1
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4
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A
N1
DA
1
4
1.00
1
N
10.89
-1.421
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1.352
A
C2
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4
ATOM
A
C2
DA
1
4
1.00
1
C
11.29
-2.300
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N3
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4
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A
N3
DA
1
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1.00
1
N
11.05
-3.439
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A
C4
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4
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A
C4
DA
1
4
1.00
1
C
14.97
-6.472
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A
P
DG
5
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A
P
DG
1
5
1.00
1
P
15.25
-6.156
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OP1
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5
ATOM
A
OP1
DG
1
5
1.00
1
O
20.20
-7.912
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6.926
A
OP2
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5
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A
OP2
DG
1
5
1.00
1
O
13.50
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5
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A
O5'
DG
1
5
1.00
1
O
14.66
-4.371
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5
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A
C5'
DG
1
5
1.00
1
C
11.79
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5
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A
C4'
DG
1
5
1.00
1
C
11.83
-3.944
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5.259
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5
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1
5
1.00
1
O
13.56
-4.919
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7.074
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5
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C3'
DG
1
5
1.00
1
C
14.47
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7.475
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5
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DG
1
5
1.00
1
O
13.04
-5.701
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5
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A
C2'
DG
1
5
1.00
1
C
11.35
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4.796
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5
ATOM
A
C1'
DG
1
5
1.00
1
C
13.37
-4.966
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3.405
A
N9
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5
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A
N9
DG
1
5
1.00
1
N
12.34
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2.921
A
C8
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5
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A
C8
DG
1
5
1.00
1
C
16.40
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A
N7
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5
ATOM
A
N7
DG
1
5
1.00
1
N
14.18
-4.938
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1.223
A
C5
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5
ATOM
A
C5
DG
1
5
1.00
1
C
9.92
-4.377
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-0.071
A
C6
DG
5
ATOM
A
C6
DG
1
5
1.00
1
C
17.24
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-1.146
A
O6
DG
5
ATOM
A
O6
DG
1
5
1.00
1
O
13.30
-3.128
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-0.034
A
N1
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5
ATOM
A
N1
DG
1
5
1.00
1
N
13.73
-2.481
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1.117
A
C2
DG
5
ATOM
A
C2
DG
1
5
1.00
1
C
13.40
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A
N2
DG
5
ATOM
A
N2
DG
1
5
1.00
1
N
12.79
-2.990
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A
N3
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5
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A
N3
DG
1
5
1.00
1
N
12.72
-4.202
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A
C4
DG
5
ATOM
A
C4
DG
1
5
1.00
1
C
17.10
-4.837
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8.368
A
P
DG
6
ATOM
A
P
DG
1
6
1.00
1
P
26.22
-3.917
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9.499
A
OP1
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6
ATOM
A
OP1
DG
1
6
1.00
1
O
20.65
-6.272
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8.552
A
OP2
DG
6
ATOM
A
OP2
DG
1
6
1.00
1
O
19.43
-4.748
32.855
7.358
A
O5'
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6
ATOM
A
O5'
DG
1
6
1.00
1
O
22.37
-3.651
33.446
6.727
A
C5'
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6
ATOM
A
C5'
DG
1
6
1.00
1
C
13.93
-3.911
34.917
6.444
A
C4'
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6
ATOM
A
C4'
DG
1
6
1.00
1
C
16.12
-4.552
35.067
5.138
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O4'
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6
ATOM
A
O4'
DG
1
6
1.00
1
O
15.70
-4.834
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7.386
A
C3'
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6
ATOM
A
C3'
DG
1
6
1.00
1
C
25.58
-4.201
36.881
7.728
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O3'
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6
ATOM
A
O3'
DG
1
6
1.00
1
O
16.57
-6.123
35.892
6.636
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C2'
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6
ATOM
A
C2'
DG
1
6
1.00
1
C
18.26
-5.627
36.004
5.216
A
C1'
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6
ATOM
A
C1'
DG
1
6
1.00
1
C
11.82
-6.556
35.603
4.142
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N9
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6
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A
N9
DG
1
6
1.00
1
N
11.97
-7.795
35.033
4.200
A
C8
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6
ATOM
A
C8
DG
1
6
1.00
1
C
12.75
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34.814
3.012
A
N7
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6
ATOM
A
N7
DG
1
6
1.00
1
N
12.21
-7.378
35.273
2.132
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C5
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6
ATOM
A
C5
DG
1
6
1.00
1
C
14.28
-7.394
35.300
0.709
A
C6
DG
6
ATOM
A
C6
DG
1
6
1.00
1
C
13.18
-8.315
34.893
-0.005
A
O6
DG
6
ATOM
A
O6
DG
1
6
1.00
1
O
11.55
-6.233
35.846
0.172
A
N1
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6
ATOM
A
N1
DG
1
6
1.00
1
N
12.88
-5.175
36.314
0.934
A
C2
DG
6
ATOM
A
C2
DG
1
6
1.00
1
C
13.91
-4.123
36.814
0.246
A
N2
DG
6
ATOM
A
N2
DG
1
6
1.00
1
N
13.12
-5.162
36.289
2.253
A
N3
DG
6
ATOM
A
N3
DG
1
6
1.00
1
N
11.91
-6.268
35.768
2.791
A
C4
DG
6
ATOM
A
C4
DG
1
6
1.00
1
C
25.71
6.770
20.109
1.361
A
C1
DR1
7
HETATM
B
C1
DR1
2
1.00
1
C
23.90
6.535
19.971
2.713
A
C2
DR1
7
HETATM
B
C2
DR1
2
1.00
1
C
20.22
5.388
19.390
3.220
A
C3
DR1
7
HETATM
B
C3
DR1
2
1.00
1
C
25.45
4.391
18.904
2.382
A
C4
DR1
7
HETATM
B
C4
DR1
2
1.00
1
C
20.62
4.605
19.029
1.017
A
C5
DR1
7
HETATM
B
C5
DR1
2
1.00
1
C
18.57
3.615
18.549
0.206
A
C6
DR1
7
HETATM
B
C6
DR1
2
1.00
1
C
15.83
3.862
18.693
-1.122
A
C7
DR1
7
HETATM
B
C7
DR1
2
1.00
1
C
29.58
3.015
18.280
-2.109
A
N8
DR1
7
HETATM
B
N8
DR1
2
1.00
1
N
17.01
3.642
18.736
-3.369
A
C9
DR1
7
HETATM
B
C9
DR1
2
1.00
1
C
29.51
3.260
18.679
-4.749
A
C10
DR1
7
HETATM
B
C10
DR1
2
1.00
1
C
31.59
4.073
19.216
-5.743
A
C11
DR1
7
HETATM
B
C11
DR1
2
1.00
1
C
24.69
5.293
19.818
-5.418
A
C12
DR1
7
HETATM
B
C12
DR1
2
1.00
1
C
33.06
5.648
19.883
-4.062
A
C13
DR1
7
HETATM
B
C13
DR1
2
1.00
1
C
17.92
4.864
19.306
-3.065
A
C14
DR1
7
HETATM
B
C14
DR1
2
1.00
1
C
23.16
5.015
19.274
-1.650
A
C15
DR1
7
HETATM
B
C15
DR1
2
1.00
1
C
32.15
5.899
19.706
-0.865
A
N16
DR1
7
HETATM
B
N16
DR1
2
1.00
1
N
20.93
5.761
19.617
0.511
A
C17
DR1
7
HETATM
B
C17
DR1
2
1.00
1
C
32.64
7.127
20.326
-1.393
A
C18
DR1
7
HETATM
B
C18
DR1
2
1.00
1
C
11.05
6.177
12.157
-3.512
A
C1
DR1
8
HETATM
C
C1
DR1
2
0.50
1
C
11.84
6.703
12.428
-4.765
A
C2
DR1
8
HETATM
C
C2
DR1
2
0.50
1
C
12.54
7.923
13.095
-4.901
A
C3
DR1
8
HETATM
C
C3
DR1
2
0.50
1
C
17.87
8.614
13.487
-3.758
A
C4
DR1
8
HETATM
C
C4
DR1
2
0.50
1
C
9.77
8.085
13.214
-2.504
A
C5
DR1
8
HETATM
C
C5
DR1
2
0.50
1
C
11.10
8.816
13.627
-1.417
A
C6
DR1
8
HETATM
C
C6
DR1
2
0.50
1
C
13.41
8.291
13.357
-0.193
A
C7
DR1
8
HETATM
C
C7
DR1
2
0.50
1
C
16.65
8.880
13.694
0.991
A
N8
DR1
8
HETATM
C
N8
DR1
2
0.50
1
N
11.90
7.940
13.211
2.018
A
C9
DR1
8
HETATM
C
C9
DR1
2
0.50
1
C
12.78
7.956
13.246
3.460
A
C10
DR1
8
HETATM
C
C10
DR1
2
0.50
1
C
14.52
6.902
12.681
4.157
A
C11
DR1
8
HETATM
C
C11
DR1
2
0.50
1
C
22.68
5.822
12.102
3.497
A
C12
DR1
8
HETATM
C
C12
DR1
2
0.50
1
C
21.89
5.804
12.084
2.097
A
C13
DR1
8
HETATM
C
C13
DR1
2
0.50
1
C
17.92
6.858
12.639
1.380
A
C14
DR1
8
HETATM
C
C14
DR1
2
0.50
1
C
16.57
7.081
12.698
-0.029
A
C15
DR1
8
HETATM
C
C15
DR1
2
0.50
1
C
18.82
6.443
12.335
-1.056
A
N16
DR1
8
HETATM
C
N16
DR1
2
0.50
1
N
13.41
6.877
12.555
-2.359
A
C17
DR1
8
HETATM
C
C17
DR1
2
0.50
1
C
20.52
5.157
11.633
-0.898
A
C18
DR1
8
HETATM
C
C18
DR1
2
0.50
1
C
12.22
7.794
14.316
-8.286
A
O
HOH
3001
HETATM
D
O
HOH
3
1.00
1
O
21.82
-1.938
31.905
11.038
A
O
HOH
3002
HETATM
D
O
HOH
3
1.00
1
O
25.25
-3.065
16.295
-9.846
A
O
HOH
3003
HETATM
D
O
HOH
3
1.00
1
O
25.87
-4.908
25.676
-3.596
A
O
HOH
3004
HETATM
D
O
HOH
3
1.00
1
O
26.02
-8.602
27.384
5.069
A
O
HOH
3005
HETATM
D
O
HOH
3
1.00
1
O
33.78
-3.347
26.508
-6.542
A
O
HOH
3006
HETATM
D
O
HOH
3
1.00
1
O
26.75
1.132
25.057
-6.109
A
O
HOH
3007
HETATM
D
O
HOH
3
1.00
1
O
37.31
-11.563
34.033
2.677
A
O
HOH
3008
HETATM
D
O
HOH
3
1.00
1
O
26.75
4.835
17.006
-10.808
A
O
HOH
3009
HETATM
D
O
HOH
3
1.00
1
O
36.58
-6.805
26.691
-2.295
A
O
HOH
3010
HETATM
D
O
HOH
3
1.00
1
O
32.80
-10.887
34.124
-0.199
A
O
HOH
3011
HETATM
D
O
HOH
3
1.00
1
O
31.26
-7.795
25.088
-1.537
A
O
HOH
3012
HETATM
D
O
HOH
3
1.00
1
O
38.10
-8.516
21.293
5.991
A
O
HOH
3013
HETATM
D
O
HOH
3
1.00
1
O
43.93
-10.364
15.623
0.057
A
O
HOH
3014
HETATM
D
O
HOH
3
1.00
1
O
40.52
-4.040
40.006
2.038
A
O
HOH
3015
HETATM
D
O
HOH
3
0.50
1
O
25.90
-0.909
18.454
-0.177
A
O
HOH
3016
HETATM
D
O
HOH
3
1.00
1
O
32.49
-2.843
18.876
-10.645
A
O
HOH
3017
HETATM
D
O
HOH
3
1.00
1
O
28.77
-4.788
16.768
-7.382
A
O
HOH
3018
HETATM
D
O
HOH
3
1.00
1
O
46.48
-14.670
20.245
1.051
A
O
HOH
3019
HETATM
D
O
HOH
3
1.00
1
O
46.69
-8.212
21.573
-3.289
A
O
HOH
3020
HETATM
D
O
HOH
3
1.00
1
O
32.22
-9.132
18.705
-0.410
A
O
HOH
3021
HETATM
D
O
HOH
3
1.00
1
O
25.54
-0.907
21.304
-7.899
A
O
HOH
3022
HETATM
D
O
HOH
3
1.00
1
O
24.80
5.006
23.241
-6.690
A
O
HOH
3023
HETATM
D
O
HOH
3
1.00
1
O
25.15
3.446
22.062
-8.835
A
O
HOH
3026
HETATM
D
O
HOH
3
1.00
1
O
27.45
-1.069
37.369
0.395
A
O
HOH
3027
HETATM
D
O
HOH
3
1.00
1
O
31.00
-5.319
21.568
-4.851
A
O
HOH
3028
HETATM
D
O
HOH
3
1.00
1
O
44.10
-5.304
18.090
2.346
A
O
HOH
3029
HETATM
D
O
HOH
3
1.00
1
O
41.61
-6.377
17.952
-7.531
A
O
HOH
3030
HETATM
D
O
HOH
3
1.00
1
O
47.56
-9.694
24.285
6.160
A
O
HOH
3031
HETATM
D
O
HOH
3
1.00
1
O
34.06
-7.321
33.227
10.111
A
O
HOH
3032
HETATM
D
O
HOH
3
1.00
1
O
36.63
-6.518
31.062
12.544
A
O
HOH
3033
HETATM
D
O
HOH
3
1.00
1
O
29.75
-8.576
27.509
0.576
A
O
HOH
3034
HETATM
D
O
HOH
3
1.00
1
O
44.92
-10.047
25.497
8.263
A
O
HOH
3035
HETATM
D
O
HOH
3
1.00
1
O
33.81
-6.332
26.741
10.463
A
O
HOH
3036
HETATM
D
O
HOH
3
1.00
1
O
56.61
-9.458
28.773
11.175
A
O
HOH
3037
HETATM
D
O
HOH
3
1.00
1
O
43.93
-6.605
18.617
-0.633
A
O
HOH
3038
HETATM
D
O
HOH
3
1.00
1
O
30.02
-2.253
16.235
-1.386
A
O
HOH
3039
HETATM
D
O
HOH
3
1.00
1
O
0.033378
0.019271
0.000000
0.000000
0.038541
0.000000
0.000000
0.000000
0.025221
0.000000
0.000000
0.000000
Lisgarten, J.N.
Coll, M.
Portugal, J.
Wright, C.W.
Aymami, J.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
29.960
29.960
39.650
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
C16 H12 N2
232.280
5-METHYL-5H-INDOLO[3,2-B]QUINOLINE
CRYPTOLEPINE
non-polymer
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
H2 O
18.015
WATER
non-polymer
N
1
N
O
N
2
N
P
N
3
N
O
N
4
N
O
N
5
N
O
N
6
N
C
N
7
R
C
N
8
N
O
N
9
S
C
N
10
N
O
N
11
N
C
N
12
R
C
Y
13
N
N
Y
14
N
C
Y
15
N
N
Y
16
N
C
Y
17
N
C
N
18
N
N
Y
19
N
N
Y
20
N
C
Y
21
N
N
Y
22
N
C
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
H
N
35
N
H
N
36
N
H
N
37
N
O
N
38
N
P
N
39
N
O
N
40
N
O
N
41
N
O
N
42
N
C
N
43
R
C
N
44
N
O
N
45
S
C
N
46
N
O
N
47
N
C
N
48
R
C
N
49
N
N
N
50
N
C
N
51
N
O
N
52
N
N
N
53
N
C
N
54
N
N
N
55
N
C
N
56
N
C
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
H
N
69
N
H
N
70
N
H
N
71
N
O
N
72
N
P
N
73
N
O
N
74
N
O
N
75
N
O
N
76
N
C
N
77
R
C
N
78
N
O
N
79
S
C
N
80
N
O
N
81
N
C
N
82
R
C
Y
83
N
N
Y
84
N
C
Y
85
N
N
Y
86
N
C
N
87
N
C
N
88
N
O
N
89
N
N
N
90
N
C
N
91
N
N
N
92
N
N
Y
93
N
C
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
H
N
105
N
H
N
106
N
H
N
107
N
H
Y
108
N
C
Y
109
N
C
Y
110
N
C
Y
111
N
C
Y
112
N
C
Y
113
N
C
Y
114
N
C
Y
115
N
N
Y
116
N
C
Y
117
N
C
Y
118
N
C
Y
119
N
C
Y
120
N
C
Y
121
N
C
Y
122
N
C
Y
123
N
N
Y
124
N
C
N
125
N
C
N
126
N
H
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
O
N
139
N
P
N
140
N
O
N
141
N
O
N
142
N
O
N
143
N
C
N
144
R
C
N
145
N
O
N
146
S
C
N
147
N
O
N
148
N
C
N
149
R
C
N
150
N
N
N
151
N
C
N
152
N
O
N
153
N
N
N
154
N
C
N
155
N
O
N
156
N
C
N
157
N
C
N
158
N
C
N
159
N
H
N
160
N
H
N
161
N
H
N
162
N
H
N
163
N
H
N
164
N
H
N
165
N
H
N
166
N
H
N
167
N
H
N
168
N
H
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
N
173
N
H
N
174
N
O
N
175
N
H
N
176
N
H
N
1
N
sing
N
2
N
sing
N
3
N
doub
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
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
Y
24
N
sing
Y
25
N
sing
Y
26
N
doub
N
27
N
sing
Y
28
N
sing
Y
29
N
sing
Y
30
N
doub
N
31
N
sing
Y
32
N
doub
N
33
N
sing
N
34
N
sing
Y
35
N
sing
Y
36
N
doub
N
37
N
sing
Y
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
doub
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
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
doub
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
sing
N
70
N
sing
N
71
N
doub
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
doub
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
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
sing
N
102
N
sing
Y
103
N
doub
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
doub
N
110
N
sing
N
111
N
sing
N
112
N
sing
Y
113
N
doub
Y
114
N
sing
N
115
N
sing
Y
116
N
sing
N
117
N
sing
Y
118
N
doub
N
119
N
sing
Y
120
N
sing
N
121
N
sing
Y
122
N
sing
Y
123
N
doub
Y
124
N
doub
N
125
N
sing
Y
126
N
sing
Y
127
N
sing
Y
128
N
doub
Y
129
N
sing
Y
130
N
sing
Y
131
N
doub
N
132
N
sing
Y
133
N
sing
N
134
N
sing
Y
135
N
doub
N
136
N
sing
Y
137
N
sing
N
138
N
sing
Y
139
N
doub
Y
140
N
sing
Y
141
N
sing
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
doub
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
doub
N
176
N
sing
N
177
N
sing
N
178
N
doub
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
9
57
60
10.1038/nsb729
11731803
The antimalarial and cytotoxic drug cryptolepine intercalates into DNA at cytosine-cytosine sites.
2002
10.2210/pdb1k9g/pdb
pdb_00001k9g
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
120
1
IMAGE PLATE
2000-05-26
MARRESEARCH
SINGLE WAVELENGTH
M
x-ray
1
1.1
1.0
BW7A
EMBL/DESY, HAMBURG
1.1
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE BW7A
1809.217
5'-D(*CP*CP*TP*AP*GP*G)-3'
1
syn
polymer
232.280
5-METHYL-5H-INDOLO[3,2-B]QUINOLINE
2
syn
non-polymer
18.015
water
37
nat
water
no
no
(DC)(DC)(DT)(DA)(DG)(DG)
CCTAGG
A
polydeoxyribonucleotide
n
n
n
n
n
n
1
2.72
54.76
VAPOR DIFFUSION, HANGING DROP
6.5
Magnesium acetate, MES, Ammonium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
1.602
1
19
A
1
A
6
-0.939
A_DC1:DG6_A
1
-10.972
0.186
0.119
-0.190
-9.873
1
19
A
2
A
5
-1.057
A_DC2:DG5_A
2
-1.689
0.159
0.409
-0.140
3.578
1
20
A
3
A
4
-1.593
A_DT3:DA4_A
3
-12.349
-0.050
-0.003
-0.202
-3.578
1
20
A
4
A
3
-1.593
A_DA4:DT3_A
4
-12.349
0.050
-0.003
-0.202
9.873
1
19
A
5
A
2
-1.057
A_DG5:DC2_A
5
-1.689
-0.159
0.409
-0.140
-1.602
1
19
A
6
A
1
-0.939
A_DG6:DC1_A
6
-10.972
-0.186
0.119
-0.190
6.920
24.066
A
A
1
2
1.485
A
A
6
5
6.943
0.619
0.113
0.397
AA_DC1DC2:DG5DG6_AA
1
-1.938
4.654
23.982
0.529
-1.592
2.872
27.500
A
A
2
3
8.306
A
A
5
4
2.977
3.923
-0.468
0.112
AA_DC2DT3:DA4DG5_AA
2
3.812
-8.072
26.960
-0.633
1.829
3.225
50.945
A
A
3
4
-4.267
A
A
4
3
3.357
-3.668
0.000
1.853
AA_DT3DA4:DT3DA4_AA
3
0.000
0.000
50.822
2.412
0.000
2.872
27.500
A
A
4
5
8.306
A
A
3
2
2.977
3.923
0.468
0.112
AA_DA4DG5:DC2DT3_AA
4
-3.812
8.072
26.960
-0.633
-1.829
6.920
24.066
A
A
5
6
1.485
A
A
2
1
6.943
0.619
-0.113
0.397
AA_DG5DG6:DC1DC2_AA
5
1.938
-4.654
23.982
0.529
1.592
chem_comp_atom
chem_comp_bond
database_2
diffrn_source
software
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Refinement description
1
0
2001-11-30
1
1
2008-04-27
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_diffrn_source.pdbx_synchrotron_site
_software.classification
_software.name
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2001-10-29
REL
DR1
5-METHYL-5H-INDOLO[3,2-B]QUINOLINE
HOH
water
DR1
7
2
DR1
DR1
7
A
DR1
8
2
DR1
DR1
8
A
HOH
3001
3
HOH
HOH
3001
A
HOH
3002
3
HOH
HOH
3002
A
HOH
3003
3
HOH
HOH
3003
A
HOH
3004
3
HOH
HOH
3004
A
HOH
3005
3
HOH
HOH
3005
A
HOH
3006
3
HOH
HOH
3006
A
HOH
3007
3
HOH
HOH
3007
A
HOH
3008
3
HOH
HOH
3008
A
HOH
3009
3
HOH
HOH
3009
A
HOH
3010
3
HOH
HOH
3010
A
HOH
3011
3
HOH
HOH
3011
A
HOH
3012
3
HOH
HOH
3012
A
HOH
3013
3
HOH
HOH
3013
A
HOH
3014
3
HOH
HOH
3014
A
HOH
3015
3
HOH
HOH
3015
A
HOH
3016
3
HOH
HOH
3016
A
HOH
3017
3
HOH
HOH
3017
A
HOH
3018
3
HOH
HOH
3018
A
HOH
3019
3
HOH
HOH
3019
A
HOH
3020
3
HOH
HOH
3020
A
HOH
3021
3
HOH
HOH
3021
A
HOH
3022
3
HOH
HOH
3022
A
HOH
3023
3
HOH
HOH
3023
A
HOH
3026
3
HOH
HOH
3026
A
HOH
3027
3
HOH
HOH
3027
A
HOH
3028
3
HOH
HOH
3028
A
HOH
3029
3
HOH
HOH
3029
A
HOH
3030
3
HOH
HOH
3030
A
HOH
3031
3
HOH
HOH
3031
A
HOH
3032
3
HOH
HOH
3032
A
HOH
3033
3
HOH
HOH
3033
A
HOH
3034
3
HOH
HOH
3034
A
HOH
3035
3
HOH
HOH
3035
A
HOH
3036
3
HOH
HOH
3036
A
HOH
3037
3
HOH
HOH
3037
A
HOH
3038
3
HOH
HOH
3038
A
HOH
3039
3
HOH
HOH
3039
A
CYT
1
n
1
DC
1
A
CYT
2
n
2
DC
2
A
THY
3
n
3
DT
3
A
ADE
4
n
4
DA
4
A
GUA
5
n
5
DG
5
A
GUA
6
n
6
DG
6
A
0.2090000
0.2080000
0.2270000
167
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
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
4_675
-x+1,-y+2,z
crystal symmetry operation
0.0000000000
51.8922421948
0.0000000000
1
A
A
O
O
HOH
HOH
3018
3030
1.99
1
A
A
O
O
HOH
HOH
3010
3012
2.03
1
A
A
C5'
O
DT
HOH
3
3038
2.13
1
-4.64
0.70
108.00
103.36
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
3.66
0.50
119.90
123.56
A
A
A
C2
N3
C4
DC
DC
DC
2
2
2
N
1
3.12
0.50
121.00
124.12
A
A
A
C5
C6
N1
DC
DC
DC
2
2
2
N
1
-5.36
0.80
102.40
97.04
A
A
A
C3'
C2'
C1'
DT
DT
DT
3
3
3
N
1
-4.23
0.60
119.00
114.77
A
A
A
C4
C5
C7
DT
DT
DT
3
3
3
N
1
8.29
1.20
119.70
127.99
A
A
A
C3'
O3'
P
DT
DT
DA
3
3
4
Y
1
-4.96
0.70
108.00
103.04
A
A
A
O4'
C1'
N9
DA
DA
DA
4
4
4
N
1
-4.61
0.50
129.30
124.69
A
A
A
N1
C2
N3
DA
DA
DA
4
4
4
N
1
10.12
1.60
120.90
131.02
A
A
A
P
O5'
C5'
DG
DG
DG
6
6
6
N
1
A
A
O
O
HOH
HOH
3026
3029
2.12
1_555
3_564
0.2270000
0.2080000
0.2090000
0.2090000
1.4
10.
167
3356
3356
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
Engh & Huber
1.4
10.
37
193
36
120
0
0.011
0.023
17.7
1.4
20
1K9G
3543
3356
2
1
0.0380000
1
29.1
87.3
0.3300000
1.4
1.45
2.4
292
73.2
phasing
AMoRE
refinement
SHELXL-97
data collection
MAR345
data scaling
SCALEPACK
Crystal Structure of the Complex of Cryptolepine-d(CCTAGG)2
1
N
N
2
N
N
2
N
N
3
N
N
The double helix is generated by the operation -x,-y+2,z.
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
A
DG
6
A
N1
DG
6
4_675
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
A
DG
6
A
O6
DG
6
4_675
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
A
DG
6
A
N2
DG
6
4_675
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
A
DG
5
A
N1
DG
5
4_675
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
A
DG
5
A
O6
DG
5
4_675
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
A
DG
5
A
N2
DG
5
4_675
hydrog
WATSON-CRICK
A
DT
3
A
N3
DT
3
1_555
A
DA
4
A
N1
DA
4
4_675
hydrog
WATSON-CRICK
A
DT
3
A
O4
DT
3
1_555
A
DA
4
A
N6
DA
4
4_675
hydrog
WATSON-CRICK
A
DA
4
A
N1
DA
4
1_555
A
DT
3
A
N3
DT
3
4_675
hydrog
WATSON-CRICK
A
DA
4
A
N6
DA
4
1_555
A
DT
3
A
O4
DT
3
4_675
hydrog
WATSON-CRICK
A
DG
5
A
N1
DG
5
1_555
A
DC
2
A
N3
DC
2
4_675
hydrog
WATSON-CRICK
A
DG
5
A
N2
DG
5
1_555
A
DC
2
A
O2
DC
2
4_675
hydrog
WATSON-CRICK
A
DG
5
A
O6
DG
5
1_555
A
DC
2
A
N4
DC
2
4_675
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
A
DC
1
A
N3
DC
1
4_675
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
A
DC
1
A
O2
DC
1
4_675
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
A
DC
1
A
N4
DC
1
4_675
DNA
DNA intercalator complex, DNA
1K9G
PDB
1
1K9G
1
6
1K9G
1
6
1K9G
A
1
1
6
BINDING SITE FOR RESIDUE DR1 A 7
A
DR1
7
Software
4
BINDING SITE FOR RESIDUE DR1 A 8
A
DR1
8
Software
6
A
DC
1
A
DC
1
4
1_555
A
DC
2
A
DC
2
4
1_555
A
DG
5
A
DG
5
4
4_675
A
DG
6
A
DG
6
4
4_675
A
DC
1
A
DC
1
6
1_555
A
DC
1
A
DC
1
6
4_665
A
DG
6
A
DG
6
6
4_675
A
DG
6
A
DG
6
6
1_545
A
HOH
3015
D
HOH
6
4_675
A
HOH
3015
D
HOH
6
1_545
172
P 64