16.21
35.697
45.482
7.005
A
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1
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1
1
1.00
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16.62
36.082
46.864
7.275
A
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1
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1
1
1.00
1
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17.07
34.852
47.483
7.922
A
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1
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A
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1
1
1.00
1
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14.92
33.718
47.379
7.103
A
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1
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1
1
1.00
1
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16.53
34.436
46.751
9.180
A
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1
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1
1
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1
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21.31
35.155
47.219
10.328
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1
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1
1
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O
15.57
32.969
47.097
9.313
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1
1
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12.32
32.562
47.188
7.888
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1
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A
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1
1
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12.68
32.007
45.881
7.474
A
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1
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A
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1
1
1.00
1
N
13.40
32.692
44.967
6.736
A
C8
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1
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A
C8
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1
1
1.00
1
C
11.71
31.908
43.962
6.402
A
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1
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N7
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1
1
1.00
1
N
10.08
30.717
44.179
7.049
A
C5
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1
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A
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1
1
1.00
1
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12.17
29.526
43.413
7.111
A
C6
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1
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A
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1
1
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1
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15.80
29.292
42.300
6.620
A
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1
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A
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1
1
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1
O
12.04
28.526
44.001
7.815
A
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1
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1
1
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1
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13.26
28.669
45.201
8.420
A
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1
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A
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1
1
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1
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18.20
27.565
45.651
9.043
A
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1
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A
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1
1
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1
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13.69
29.756
45.954
8.386
A
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1
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A
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1
1
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1
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11.24
30.752
45.387
7.675
A
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1
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A
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1
1
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1
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23.10
35.558
46.301
11.586
A
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2
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A
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1
2
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25.74
36.831
46.820
12.064
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2
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A
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1
2
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21.62
36.065
45.028
10.872
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2
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1
2
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21.51
34.151
46.006
12.179
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1
2
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18.01
33.549
46.781
13.216
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1
2
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17.64
32.150
46.279
13.332
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1
2
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21.26
31.613
46.084
12.042
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2
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1
2
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16.77
31.947
44.911
14.011
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2
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1
2
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22.98
32.068
45.045
15.389
A
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2
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1
2
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13.38
30.501
44.599
13.611
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1
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14.00
30.539
45.101
12.186
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2
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A
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1
2
1.00
1
C
14.95
30.873
44.010
11.279
A
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2
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A
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1
2
1.00
1
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20.01
29.812
43.196
10.965
A
C2
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2
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A
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1
2
1.00
1
C
20.86
28.660
43.387
11.421
A
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2
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A
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1
2
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1
O
12.41
30.029
42.153
10.102
A
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2
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A
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1
2
1.00
1
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13.79
31.206
41.923
9.531
A
C4
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2
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A
C4
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1
2
1.00
1
C
14.85
31.280
40.871
8.710
A
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2
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A
N4
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1
2
1.00
1
N
16.15
32.302
42.767
9.845
A
C5
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2
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A
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1
2
1.00
1
C
15.06
32.107
43.794
10.725
A
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2
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A
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1
2
1.00
1
C
24.50
32.367
43.954
16.507
A
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3
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A
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1
3
1.00
1
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29.06
32.960
44.642
17.598
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3
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1
3
1.00
1
O
28.93
33.523
43.144
15.833
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3
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1
3
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1
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17.26
31.102
42.962
16.470
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3
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1
3
1.00
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20.93
29.942
43.534
17.142
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3
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A
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1
3
1.00
1
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18.27
28.946
42.412
16.963
A
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3
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A
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1
3
1.00
1
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25.17
28.747
42.278
15.573
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3
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1
3
1.00
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22.05
29.444
41.057
17.392
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3
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A
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1
3
1.00
1
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23.64
29.111
40.750
18.723
A
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3
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A
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1
3
1.00
1
O
23.43
28.630
40.117
16.492
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3
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A
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1
3
1.00
1
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20.14
28.435
40.931
15.247
A
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3
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A
C1'
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1
3
1.00
1
C
21.29
29.340
40.377
14.214
A
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3
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A
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1
3
1.00
1
N
20.86
28.747
39.373
13.461
A
C2
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3
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A
C2
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1
3
1.00
1
C
21.72
27.586
39.035
13.729
A
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3
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A
O2
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1
3
1.00
1
O
15.45
29.470
38.805
12.439
A
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3
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A
N3
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1
3
1.00
1
N
19.26
30.747
39.234
12.182
A
C4
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3
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A
C4
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1
3
1.00
1
C
18.66
31.475
38.645
11.223
A
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3
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A
N4
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1
3
1.00
1
N
18.82
31.336
40.260
12.976
A
C5
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3
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A
C5
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1
3
1.00
1
C
17.43
30.622
40.789
13.974
A
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3
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A
C6
DC
1
3
1.00
1
C
26.14
29.370
39.399
19.513
A
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4
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A
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DC
1
4
1.00
1
P
30.06
29.024
39.741
20.925
A
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4
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A
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DC
1
4
1.00
1
O
32.03
30.804
39.347
19.226
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4
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A
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1
4
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1
O
23.01
28.660
38.035
19.052
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4
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1
4
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O
20.93
27.240
37.879
18.929
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4
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1
4
1.00
1
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19.39
26.928
36.545
18.265
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4
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1
4
1.00
1
C
19.54
26.976
36.601
16.853
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4
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A
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1
4
1.00
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O
14.18
27.903
35.445
18.670
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4
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A
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1
4
1.00
1
C
18.55
27.409
34.861
19.903
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4
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1
4
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O
12.37
27.868
34.497
17.524
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4
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A
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1
4
1.00
1
C
16.88
27.556
35.393
16.360
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C1'
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4
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A
C1'
DC
1
4
1.00
1
C
10.63
28.816
35.658
15.632
A
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4
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A
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DC
1
4
1.00
1
N
12.45
29.098
34.740
14.646
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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
14.34
28.310
33.804
14.455
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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
13.42
30.219
34.895
13.866
A
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4
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A
N3
DC
1
4
1.00
1
N
13.54
31.085
35.935
14.106
A
C4
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4
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A
C4
DC
1
4
1.00
1
C
14.22
32.176
36.026
13.358
A
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4
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A
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1
4
1.00
1
N
12.41
30.830
36.853
15.175
A
C5
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4
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C5
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1
4
1.00
1
C
12.81
29.699
36.666
15.909
A
C6
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4
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A
C6
DC
1
4
1.00
1
C
19.62
28.362
33.822
20.727
A
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5
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A
P
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1
5
1.00
1
P
25.66
27.599
33.583
21.950
A
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5
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A
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G31
1
5
1.00
1
O
17.98
29.669
34.333
20.616
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5
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1
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1.00
1
O
16.50
28.253
32.505
19.783
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5
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1
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1.00
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O
15.99
29.318
31.522
19.680
A
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5
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A
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1
5
1.00
1
C
15.82
28.803
30.531
18.625
A
C4'
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5
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A
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1
5
1.00
1
C
14.33
28.634
31.193
17.404
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5
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1
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1.00
1
O
17.18
29.782
29.405
18.383
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5
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A
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1
5
1.00
1
C
18.59
29.730
29.184
16.887
A
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5
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A
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1
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1.00
1
C
17.50
29.336
30.527
16.338
A
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5
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A
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1
5
1.00
1
C
12.87
30.544
31.250
15.913
A
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5
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1
5
1.00
1
N
10.10
31.089
32.397
16.414
A
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5
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A
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1
5
1.00
1
C
12.45
32.181
32.778
15.793
A
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5
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A
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1
5
1.00
1
N
12.32
32.323
31.838
14.773
A
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5
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A
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1
5
1.00
1
C
11.58
33.246
31.739
13.707
A
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5
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A
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1
5
1.00
1
C
14.79
34.220
32.449
13.471
A
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5
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A
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1
5
1.00
1
O
11.24
33.051
30.674
12.853
A
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5
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A
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1
5
1.00
1
N
12.88
32.003
29.834
13.050
A
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5
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A
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1
5
1.00
1
C
12.48
31.912
28.872
12.113
A
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5
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A
N2
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1
5
1.00
1
N
13.26
31.068
29.868
14.008
A
N3
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5
HETATM
A
N3
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1
5
1.00
1
N
13.21
31.293
30.921
14.815
A
C4
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5
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A
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1
5
1.00
1
C
17.32
29.375
28.206
19.243
A
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5
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A
C3M
G31
1
5
1.00
1
C
16.28
30.864
27.184
19.513
A
P
DG
6
ATOM
A
P
DG
1
6
1.00
1
P
8.52
31.843
27.967
20.062
A
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6
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DG
1
6
1.00
1
O
23.93
30.492
26.054
20.406
A
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6
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DG
1
6
1.00
1
O
12.75
31.193
26.461
18.189
A
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6
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A
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DG
1
6
1.00
1
O
13.28
30.371
25.369
17.686
A
C5'
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6
ATOM
A
C5'
DG
1
6
1.00
1
C
17.96
30.998
25.075
16.333
A
C4'
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6
ATOM
A
C4'
DG
1
6
1.00
1
C
16.55
31.059
26.162
15.374
A
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6
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A
O4'
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1
6
1.00
1
O
17.76
32.466
24.607
16.475
A
C3'
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6
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A
C3'
DG
1
6
1.00
1
C
22.86
32.531
23.317
17.081
A
O3'
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6
ATOM
A
O3'
DG
1
6
1.00
1
O
17.17
32.951
24.659
15.019
A
C2'
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6
ATOM
A
C2'
DG
1
6
1.00
1
C
12.94
32.280
25.950
14.602
A
C1'
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6
ATOM
A
C1'
DG
1
6
1.00
1
C
9.43
33.168
27.054
14.916
A
N9
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6
ATOM
A
N9
DG
1
6
1.00
1
N
10.82
33.038
27.967
15.933
A
C8
DG
6
ATOM
A
C8
DG
1
6
1.00
1
C
9.80
33.973
28.877
15.933
A
N7
DG
6
ATOM
A
N7
DG
1
6
1.00
1
N
9.62
34.783
28.552
14.844
A
C5
DG
6
ATOM
A
C5
DG
1
6
1.00
1
C
7.50
35.978
29.085
14.349
A
C6
DG
6
ATOM
A
C6
DG
1
6
1.00
1
C
12.91
36.636
30.089
14.651
A
O6
DG
6
ATOM
A
O6
DG
1
6
1.00
1
O
8.11
36.441
28.418
13.256
A
N1
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6
ATOM
A
N1
DG
1
6
1.00
1
N
13.41
35.913
27.322
12.723
A
C2
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6
ATOM
A
C2
DG
1
6
1.00
1
C
14.23
36.532
26.837
11.645
A
N2
DG
6
ATOM
A
N2
DG
1
6
1.00
1
N
13.93
34.839
26.725
13.226
A
N3
DG
6
ATOM
A
N3
DG
1
6
1.00
1
N
9.95
34.298
27.409
14.246
A
C4
DG
6
ATOM
A
C4
DG
1
6
1.00
1
C
19.27
33.744
22.707
17.885
A
P
DG
7
ATOM
A
P
DG
1
7
1.00
1
P
26.66
33.220
21.421
18.375
A
OP1
DG
7
ATOM
A
OP1
DG
1
7
1.00
1
O
22.20
34.255
23.793
18.834
A
OP2
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7
ATOM
A
OP2
DG
1
7
1.00
1
O
18.97
35.012
22.481
16.889
A
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7
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A
O5'
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1
7
1.00
1
O
18.08
34.787
21.763
15.658
A
C5'
DG
7
ATOM
A
C5'
DG
1
7
1.00
1
C
16.25
35.987
21.936
14.746
A
C4'
DG
7
ATOM
A
C4'
DG
1
7
1.00
1
C
16.47
35.961
23.278
14.241
A
O4'
DG
7
ATOM
A
O4'
DG
1
7
1.00
1
O
16.08
37.359
21.780
15.350
A
C3'
DG
7
ATOM
A
C3'
DG
1
7
1.00
1
C
22.04
37.775
20.425
15.406
A
O3'
DG
7
ATOM
A
O3'
DG
1
7
1.00
1
O
12.92
38.230
22.598
14.386
A
C2'
DG
7
ATOM
A
C2'
DG
1
7
1.00
1
C
12.87
37.333
23.724
14.033
A
C1'
DG
7
ATOM
A
C1'
DG
1
7
1.00
1
C
16.82
37.563
24.932
14.866
A
N9
DG
7
ATOM
A
N9
DG
1
7
1.00
1
N
10.46
36.783
25.434
15.879
A
C8
DG
7
ATOM
A
C8
DG
1
7
1.00
1
C
15.21
37.264
26.569
16.338
A
N7
DG
7
ATOM
A
N7
DG
1
7
1.00
1
N
12.81
38.403
26.837
15.609
A
C5
DG
7
ATOM
A
C5
DG
1
7
1.00
1
C
13.62
39.351
27.898
15.612
A
C6
DG
7
ATOM
A
C6
DG
1
7
1.00
1
C
15.19
39.373
28.868
16.370
A
O6
DG
7
ATOM
A
O6
DG
1
7
1.00
1
O
14.71
40.338
27.786
14.661
A
N1
DG
7
ATOM
A
N1
DG
1
7
1.00
1
N
11.61
40.434
26.759
13.807
A
C2
DG
7
ATOM
A
C2
DG
1
7
1.00
1
C
12.20
41.386
26.638
12.875
A
N2
DG
7
ATOM
A
N2
DG
1
7
1.00
1
N
13.45
39.542
25.776
13.790
A
N3
DG
7
ATOM
A
N3
DG
1
7
1.00
1
N
12.05
38.559
25.850
14.673
A
C4
DG
7
ATOM
A
C4
DG
1
7
1.00
1
C
20.65
38.892
19.849
16.382
A
P
DC
8
ATOM
A
P
DC
1
8
1.00
1
P
23.73
38.572
18.394
16.230
A
OP1
DC
8
ATOM
A
OP1
DC
1
8
1.00
1
O
26.75
38.684
20.511
17.659
A
OP2
DC
8
ATOM
A
OP2
DC
1
8
1.00
1
O
25.15
40.343
20.277
16.007
A
O5'
DC
8
ATOM
A
O5'
DC
1
8
1.00
1
O
27.85
40.637
20.091
14.604
A
C5'
DC
8
ATOM
A
C5'
DC
1
8
1.00
1
C
26.77
41.927
20.849
14.310
A
C4'
DC
8
ATOM
A
C4'
DC
1
8
1.00
1
C
27.18
41.676
22.230
14.266
A
O4'
DC
8
ATOM
A
O4'
DC
1
8
1.00
1
O
29.45
42.967
20.585
15.372
A
C3'
DC
8
ATOM
A
C3'
DC
1
8
1.00
1
C
44.79
44.023
19.749
14.884
A
O3'
DC
8
ATOM
A
O3'
DC
1
8
1.00
1
O
28.45
43.555
21.918
15.715
A
C2'
DC
8
ATOM
A
C2'
DC
1
8
1.00
1
C
22.31
42.763
22.888
14.933
A
C1'
DC
8
ATOM
A
C1'
DC
1
8
1.00
1
C
19.44
42.200
23.889
15.884
A
N1
DC
8
ATOM
A
N1
DC
1
8
1.00
1
N
16.95
42.945
25.058
15.963
A
C2
DC
8
ATOM
A
C2
DC
1
8
1.00
1
C
20.29
43.971
25.231
15.303
A
O2
DC
8
ATOM
A
O2
DC
1
8
1.00
1
O
16.14
42.473
26.093
16.732
A
N3
DC
8
ATOM
A
N3
DC
1
8
1.00
1
N
13.61
41.347
25.906
17.458
A
C4
DC
8
ATOM
A
C4
DC
1
8
1.00
1
C
14.01
40.923
26.885
18.201
A
N4
DC
8
ATOM
A
N4
DC
1
8
1.00
1
N
16.84
40.620
24.690
17.394
A
C5
DC
8
ATOM
A
C5
DC
1
8
1.00
1
C
13.75
41.066
23.720
16.585
A
C6
DC
8
ATOM
A
C6
DC
1
8
1.00
1
C
21.16
28.764
28.210
13.714
A
O
HOH
9
HETATM
B
O
HOH
2
1.00
1
O
28.17
30.613
40.533
5.488
A
O
HOH
10
HETATM
B
O
HOH
2
1.00
1
O
25.07
38.723
16.939
13.714
A
O
HOH
11
HETATM
B
O
HOH
2
1.00
1
O
28.73
40.650
23.525
11.846
A
O
HOH
12
HETATM
B
O
HOH
2
1.00
1
O
30.31
34.497
30.462
17.831
A
O
HOH
13
HETATM
B
O
HOH
2
1.00
1
O
37.36
26.699
30.860
23.051
A
O
HOH
14
HETATM
B
O
HOH
2
1.00
1
O
48.80
36.476
29.076
18.920
A
O
HOH
15
HETATM
B
O
HOH
2
1.00
1
O
40.88
31.999
30.059
21.524
A
O
HOH
16
HETATM
B
O
HOH
2
1.00
1
O
32.34
34.051
40.100
11.174
A
O
HOH
17
HETATM
B
O
HOH
2
1.00
1
O
53.20
37.065
43.975
8.518
A
O
HOH
18
HETATM
B
O
HOH
2
1.00
1
O
30.18
34.372
26.500
19.211
A
O
HOH
19
HETATM
B
O
HOH
2
1.00
1
O
30.55
31.626
34.558
19.135
A
O
HOH
20
HETATM
B
O
HOH
2
1.00
1
O
28.43
38.641
48.635
11.142
A
O
HOH
21
HETATM
B
O
HOH
2
1.00
1
O
40.73
33.211
42.161
4.855
A
O
HOH
22
HETATM
B
O
HOH
2
1.00
1
O
41.51
25.465
39.905
14.545
A
O
HOH
23
HETATM
B
O
HOH
2
1.00
1
O
58.33
33.796
38.147
14.415
A
O
HOH
24
HETATM
B
O
HOH
2
1.00
1
O
45.05
26.664
45.331
12.334
A
O
HOH
25
HETATM
B
O
HOH
2
1.00
1
O
29.66
33.713
34.709
16.414
A
O
HOH
26
HETATM
B
O
HOH
2
1.00
1
O
42.86
27.452
25.404
20.347
A
O
HOH
27
HETATM
B
O
HOH
2
1.00
1
O
49.01
28.626
40.949
23.328
A
O
HOH
28
HETATM
B
O
HOH
2
1.00
1
O
53.89
31.531
36.792
18.071
A
O
HOH
29
HETATM
B
O
HOH
2
1.00
1
O
52.14
38.801
22.291
19.692
A
O
HOH
30
HETATM
B
O
HOH
2
1.00
1
O
55.81
26.339
40.810
21.519
A
O
HOH
31
HETATM
B
O
HOH
2
1.00
1
O
52.23
35.095
41.274
7.415
A
O
HOH
32
HETATM
B
O
HOH
2
1.00
1
O
59.73
34.411
21.304
21.291
A
O
HOH
33
HETATM
B
O
HOH
2
1.00
1
O
55.44
35.606
45.430
4.514
A
O
HOH
34
HETATM
B
O
HOH
2
1.00
1
O
55.39
34.999
41.975
13.020
A
O
HOH
35
HETATM
B
O
HOH
2
1.00
1
O
49.19
30.094
37.112
22.504
A
O
HOH
36
HETATM
B
O
HOH
2
1.00
1
O
49.37
35.060
34.956
13.650
A
O
HOH
37
HETATM
B
O
HOH
2
1.00
1
O
0.023095
0.000000
0.000000
0.000000
0.023095
0.000000
0.000000
0.000000
0.040783
0.00000
0.00000
0.00000
Heinemann, U.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
43.300
43.300
24.520
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
C11 H16 N5 O6 P
345.248
n
3'-METHYL-2',3'-DEOXY-GUANOSINE-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
N
13
N
N
N
14
N
C
N
15
N
O
N
16
N
N
N
17
N
C
N
18
N
N
N
19
N
C
N
20
N
C
N
21
N
H
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
H
N
35
N
O
N
36
N
P
N
37
N
O
N
38
N
O
N
39
N
O
N
40
N
C
N
41
R
C
N
42
N
O
N
43
S
C
N
44
N
O
N
45
N
C
N
46
R
C
Y
47
N
N
Y
48
N
C
Y
49
N
N
Y
50
N
C
N
51
N
C
N
52
N
O
N
53
N
N
N
54
N
C
N
55
N
N
N
56
N
N
Y
57
N
C
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
H
N
72
N
O
N
73
N
P
N
74
N
O
N
75
N
O
N
76
N
O
N
77
N
C
N
78
S
C
N
79
N
O
N
80
S
C
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
C
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
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
O
N
112
N
H
N
113
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
N
24
N
sing
N
25
N
sing
N
26
N
doub
N
27
N
sing
N
28
N
doub
N
29
N
sing
N
30
N
sing
N
31
N
sing
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
doub
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
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
Y
59
N
sing
Y
60
N
sing
Y
61
N
doub
N
62
N
sing
Y
63
N
sing
N
64
N
sing
Y
65
N
doub
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
doub
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
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
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
19
427
433
10.1093/nar/19.3.427
2011517
Effect of a single 3'-methylene phosphonate linkage on the conformation of an A-DNA octamer double helix.
1991
Adenine Press, Albany, NY
Structure and Methods. DNA and RNA
0810
0-940030-31-4
3
39
53
Structural Features of G/C-Rich DNA Going A or B
1990
US
Nucleosides and Nucleotides
NUNUD5
0653
0732-8311
9
349
354
X-Ray Studies of DNA Aiming at Elucidating the Sequence-Structure Code
1990
US
Nucleosides and Nucleotides
NUNUD5
0653
0732-8311
7
699
702
X-Ray Crystallographic Studies of the A-Form of DNA
1988
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
15
9531
9550
Crystal Structure Analysis of an A-DNA Fragment at 1.8 Angstroms Resolution: d(GCCCGGGC)
1987
10.2210/pdb1d26/pdb
pdb_00001d26
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
OSCILLATION CAMERA
ARNDT-WONACOTT
x-ray
1
1.0
X31
EMBL/DESY, HAMBURG
SYNCHROTRON
EMBL/DESY, HAMBURG BEAMLINE X31
2426.620
DNA (5'-D(*GP*CP*CP*CP*(G31)P*GP*GP*C)-3')
1
man
polymer
18.015
water
29
nat
water
no
yes
(DG)(DC)(DC)(DC)(G31)(DG)(DG)(DC)
GCCCGGGC
A
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
2.37
48.06
MICRODIALYSIS
7.00
pH 7.00, MICRODIALYSIS, temperature 277.00K
277.00
WATER
1
MPD
1
BIS-TRIS-PROPANE_HCL
1
MG ACETATE
1
WATER
2
MPD
2
0.881
1
19
A
1
A
8
-3.866
A_DG1:DC8_A
1
-6.088
-0.271
0.195
-0.193
10.328
1
19
A
2
A
7
1.787
A_DC2:DG7_A
2
-12.927
0.265
-0.072
-0.117
9.054
1
19
A
3
A
6
0.649
A_DC3:DG6_A
3
-11.604
0.193
-0.259
-0.195
-3.216
1
19
A
4
A
5
0.256
A_DC4:G315_A
4
-3.896
0.138
0.129
-0.060
3.216
1
19
A
5
A
4
0.256
A_G315:DC4_A
5
-3.896
-0.138
0.129
-0.060
-9.054
1
19
A
6
A
3
0.649
A_DG6:DC3_A
6
-11.604
-0.193
-0.259
-0.195
-10.328
1
19
A
7
A
2
1.787
A_DG7:DC2_A
7
-12.927
-0.265
-0.072
-0.117
-0.881
1
19
A
8
A
1
-3.866
A_DC8:DG1_A
8
-6.088
0.271
0.195
-0.193
2.796
32.905
A
A
1
2
12.333
A
A
8
7
3.074
6.933
0.596
-1.163
AA_DG1DC2:DG7DC8_AA
1
1.732
-3.080
32.140
-3.128
-0.783
2.912
31.496
A
A
2
3
13.599
A
A
7
6
3.399
7.315
-0.152
-1.708
AA_DC2DC3:DG6DG7_AA
2
1.519
-2.824
30.619
-4.483
0.558
3.403
37.133
A
A
3
4
8.138
A
A
6
5
3.667
5.166
0.174
-1.659
AA_DC3DC4:G315DG6_AA
3
-1.315
2.072
36.762
-3.355
-0.464
2.969
22.719
A
A
4
5
7.309
A
A
5
4
3.236
2.872
0.000
-1.938
AA_DC4G315:DC4G315_AA
4
0.000
0.000
22.539
-5.906
0.000
3.403
37.133
A
A
5
6
8.138
A
A
4
3
3.667
5.166
-0.174
-1.659
AA_G315DG6:DC3DC4_AA
5
1.315
-2.072
36.762
-3.355
0.464
2.912
31.496
A
A
6
7
13.600
A
A
3
2
3.399
7.315
0.152
-1.708
AA_DG6DG7:DC2DC3_AA
6
-1.519
2.824
30.619
-4.483
-0.558
2.796
32.905
A
A
7
8
12.332
A
A
2
1
3.074
6.933
-0.596
-1.163
AA_DG7DC8:DG1DC2_AA
7
-1.732
3.080
32.140
-3.128
0.783
chem_comp_atom
chem_comp_bond
database_2
diffrn_source
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
1992-04-07
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_diffrn_source.pdbx_synchrotron_site
_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_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_comp_id
_struct_conn.ptnr2_label_seq_id
BNL
Y
NDB
1990-09-17
REL
REL
HOH
water
HOH
9
2
HOH
HOH
9
A
HOH
10
2
HOH
HOH
10
A
HOH
11
2
HOH
HOH
11
A
HOH
12
2
HOH
HOH
12
A
HOH
13
2
HOH
HOH
13
A
HOH
14
2
HOH
HOH
14
A
HOH
15
2
HOH
HOH
15
A
HOH
16
2
HOH
HOH
16
A
HOH
17
2
HOH
HOH
17
A
HOH
18
2
HOH
HOH
18
A
HOH
19
2
HOH
HOH
19
A
HOH
20
2
HOH
HOH
20
A
HOH
21
2
HOH
HOH
21
A
HOH
22
2
HOH
HOH
22
A
HOH
23
2
HOH
HOH
23
A
HOH
24
2
HOH
HOH
24
A
HOH
25
2
HOH
HOH
25
A
HOH
26
2
HOH
HOH
26
A
HOH
27
2
HOH
HOH
27
A
HOH
28
2
HOH
HOH
28
A
HOH
29
2
HOH
HOH
29
A
HOH
30
2
HOH
HOH
30
A
HOH
31
2
HOH
HOH
31
A
HOH
32
2
HOH
HOH
32
A
HOH
33
2
HOH
HOH
33
A
HOH
34
2
HOH
HOH
34
A
HOH
35
2
HOH
HOH
35
A
HOH
36
2
HOH
HOH
36
A
HOH
37
2
HOH
HOH
37
A
G
1
n
1
DG
1
A
C
2
n
2
DC
2
A
C
3
n
3
DC
3
A
C
4
n
4
DC
4
A
+G
5
n
5
G31
5
A
G
6
n
6
DG
6
A
G
7
n
7
DG
7
A
C
8
n
8
DC
8
A
author_defined_assembly
2
dimeric
A
G31
5
A
G31
5
DG
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
0.0000000000
1.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
7_556
y,x,-z+1
crystal symmetry operation
0.0000000000
0.0000000000
24.5200000000
1
-4.89
0.80
109.40
104.51
A
A
A
O5'
C5'
C4'
DG
DG
DG
1
1
1
N
1
-20.48
1.50
119.60
99.12
A
A
A
OP1
P
OP2
DC
DC
DC
2
2
2
N
1
26.50
1.20
110.70
137.20
A
A
A
O5'
P
OP1
DC
DC
DC
2
2
2
N
1
-2.79
0.40
121.90
119.11
A
A
A
N3
C4
C5
DC
DC
DC
2
2
2
N
1
10.63
1.20
119.70
130.33
A
A
A
C3'
O3'
P
DC
DC
DC
2
2
3
Y
1
-13.73
1.50
119.60
105.87
A
A
A
OP1
P
OP2
DC
DC
DC
3
3
3
N
1
19.49
1.20
110.70
130.19
A
A
A
O5'
P
OP1
DC
DC
DC
3
3
3
N
1
-9.11
0.80
109.40
100.29
A
A
A
O5'
C5'
C4'
DC
DC
DC
3
3
3
N
1
4.07
0.30
108.30
112.37
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
1
8.53
1.20
119.70
128.23
A
A
A
C3'
O3'
P
DC
DC
DC
3
3
4
Y
1
16.56
1.90
104.00
120.56
A
A
A
O3'
P
O5'
DC
DC
DC
3
4
4
Y
1
3.07
0.30
108.30
111.37
A
A
A
O4'
C1'
N1
DC
DC
DC
4
4
4
N
1
-6.71
0.80
109.40
102.69
A
A
A
O5'
C5'
C4'
DG
DG
DG
6
6
6
N
1
7.64
1.10
109.80
117.44
A
A
A
C5'
C4'
O4'
DG
DG
DG
6
6
6
N
1
3.62
0.50
106.80
110.42
A
A
A
O4'
C1'
C2'
DG
DG
DG
6
6
6
N
1
-5.54
0.60
119.90
114.36
A
A
A
N1
C6
O6
DG
DG
DG
6
6
6
N
1
3.99
0.60
128.60
132.59
A
A
A
C5
C6
O6
DG
DG
DG
6
6
6
N
1
7.24
1.20
119.70
126.94
A
A
A
C3'
O3'
P
DG
DG
DG
6
6
7
Y
1
4.79
0.50
111.90
116.69
A
A
A
C2
N3
C4
DG
DG
DG
7
7
7
N
1
-3.07
0.50
128.60
125.53
A
A
A
N3
C4
C5
DG
DG
DG
7
7
7
N
1
3.08
0.50
111.50
114.58
A
A
A
C5
C6
N1
DG
DG
DG
7
7
7
N
1
-2.41
0.40
110.80
108.39
A
A
A
C4
C5
N7
DG
DG
DG
7
7
7
N
1
8.18
0.90
116.20
124.38
A
A
A
N1
C2
N2
DG
DG
DG
7
7
7
N
1
-6.18
0.70
119.90
113.72
A
A
A
N3
C2
N2
DG
DG
DG
7
7
7
N
1
3.77
0.50
106.80
110.57
A
A
A
O4'
C1'
C2'
DC
DC
DC
8
8
8
N
1
A
A
P
OP1
DG
DG
6
6
-0.116
0.017
1.485
1.369
N
0.16
2.120
6.000
1197
1
3.000
TR
isotropic
TR
isotropic
2.120
6.000
29
190
1
160
0
3.130
5.000
3.920
6.500
4.810
7.500
4.370
7.500
0.015
0.025
0.035
0.050
0.055
0.050
0.074
0.075
0.020
0.030
0.072
0.100
0.132
0.250
0.208
0.250
fix
fix
2.120
6.000
1D26
1303
1.000
1
refinement
NUCLSQ
EFFECT OF A SINGLE 3'-METHYLENE PHOSPHONATE LINKAGE ON THE CONFORMATION OF AN A-DNA OCTAMER DOUBLE HELIX
1
N
N
2
N
N
covale
1.633
both
A
DC
4
A
O3'
DC
4
1_555
A
G31
5
A
P
G31
5
1_555
covale
1.826
one
A
G31
5
A
C3M
G31
5
1_555
A
DG
6
A
P
DG
6
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
A
DC
8
A
N3
DC
8
7_556
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
A
DC
8
A
O2
DC
8
7_556
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
A
DC
8
A
N4
DC
8
7_556
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
A
DG
7
A
N1
DG
7
7_556
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
A
DG
7
A
O6
DG
7
7_556
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
A
DG
7
A
N2
DG
7
7_556
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
A
DG
6
A
N1
DG
6
7_556
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
A
DG
6
A
O6
DG
6
7_556
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
A
DG
6
A
N2
DG
6
7_556
hydrog
WATSON-CRICK
A
DC
4
A
N3
DC
4
1_555
A
G31
5
A
N1
G31
5
7_556
hydrog
WATSON-CRICK
A
DC
4
A
N4
DC
4
1_555
A
G31
5
A
O6
G31
5
7_556
hydrog
WATSON-CRICK
A
DC
4
A
O2
DC
4
1_555
A
G31
5
A
N2
G31
5
7_556
hydrog
WATSON-CRICK
A
G31
5
A
N1
G31
5
1_555
A
DC
4
A
N3
DC
4
7_556
hydrog
WATSON-CRICK
A
G31
5
A
N2
G31
5
1_555
A
DC
4
A
O2
DC
4
7_556
hydrog
WATSON-CRICK
A
G31
5
A
O6
G31
5
1_555
A
DC
4
A
N4
DC
4
7_556
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
A
DC
3
A
N3
DC
3
7_556
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
A
DC
3
A
O2
DC
3
7_556
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
A
DC
3
A
N4
DC
3
7_556
hydrog
WATSON-CRICK
A
DG
7
A
N1
DG
7
1_555
A
DC
2
A
N3
DC
2
7_556
hydrog
WATSON-CRICK
A
DG
7
A
N2
DG
7
1_555
A
DC
2
A
O2
DC
2
7_556
hydrog
WATSON-CRICK
A
DG
7
A
O6
DG
7
1_555
A
DC
2
A
N4
DC
2
7_556
hydrog
WATSON-CRICK
A
DC
8
A
N3
DC
8
1_555
A
DG
1
A
N1
DG
1
7_556
hydrog
WATSON-CRICK
A
DC
8
A
N4
DC
8
1_555
A
DG
1
A
O6
DG
1
7_556
hydrog
WATSON-CRICK
A
DC
8
A
O2
DC
8
1_555
A
DG
1
A
N2
DG
1
7_556
DNA
A-DNA, DOUBLE HELIX, MODIFIED, DNA
1D26
PDB
1
1D26
1
8
1D26
1
8
1D26
A
1
1
8
96
P 43 21 2