21.94
8.502
19.354
23.546
A
O5'
DC
1
ATOM
A
O5'
DC
1
1
1.00
1
O
16.63
9.070
20.429
24.302
A
C5'
DC
1
ATOM
A
C5'
DC
1
1
1.00
1
C
18.84
10.542
20.221
24.701
A
C4'
DC
1
ATOM
A
C4'
DC
1
1
1.00
1
C
12.77
10.767
19.021
25.470
A
O4'
DC
1
ATOM
A
O4'
DC
1
1
1.00
1
O
18.81
11.454
20.193
23.484
A
C3'
DC
1
ATOM
A
C3'
DC
1
1
1.00
1
C
23.77
12.523
21.099
23.753
A
O3'
DC
1
ATOM
A
O3'
DC
1
1
1.00
1
O
15.12
11.893
18.739
23.440
A
C2'
DC
1
ATOM
A
C2'
DC
1
1
1.00
1
C
12.90
11.810
18.251
24.879
A
C1'
DC
1
ATOM
A
C1'
DC
1
1
1.00
1
C
13.97
11.408
16.840
24.975
A
N1
DC
1
ATOM
A
N1
DC
1
1
1.00
1
N
10.17
12.383
15.863
25.121
A
C2
DC
1
ATOM
A
C2
DC
1
1
1.00
1
C
9.00
13.577
16.125
25.196
A
O2
DC
1
ATOM
A
O2
DC
1
1
1.00
1
O
10.22
12.003
14.568
25.189
A
N3
DC
1
ATOM
A
N3
DC
1
1
1.00
1
N
6.53
10.714
14.257
25.138
A
C4
DC
1
ATOM
A
C4
DC
1
1
1.00
1
C
11.82
10.390
12.993
25.207
A
N4
DC
1
ATOM
A
N4
DC
1
1
1.00
1
N
12.34
9.685
15.235
24.998
A
C5
DC
1
ATOM
A
C5
DC
1
1
1.00
1
C
9.72
10.086
16.518
24.914
A
C6
DC
1
ATOM
A
C6
DC
1
1
1.00
1
C
26.09
12.945
22.222
22.687
A
P
DG
2
ATOM
A
P
DG
1
2
1.00
1
P
26.89
13.930
23.098
23.354
A
OP1
DG
2
ATOM
A
OP1
DG
1
2
1.00
1
O
28.36
11.731
22.825
22.086
A
OP2
DG
2
ATOM
A
OP2
DG
1
2
1.00
1
O
27.59
13.690
21.362
21.546
A
O5'
DG
2
ATOM
A
O5'
DG
1
2
1.00
1
O
24.61
15.046
20.874
21.704
A
C5'
DG
2
ATOM
A
C5'
DG
1
2
1.00
1
C
23.60
15.583
20.024
20.523
A
C4'
DG
2
ATOM
A
C4'
DG
1
2
1.00
1
C
22.26
14.872
18.779
20.379
A
O4'
DG
2
ATOM
A
O4'
DG
1
2
1.00
1
O
21.88
15.431
20.792
19.194
A
C3'
DG
2
ATOM
A
C3'
DG
1
2
1.00
1
C
27.23
16.631
20.728
18.409
A
O3'
DG
2
ATOM
A
O3'
DG
1
2
1.00
1
O
19.18
14.300
20.050
18.533
A
C2'
DG
2
ATOM
A
C2'
DG
1
2
1.00
1
C
15.61
14.546
18.634
18.987
A
C1'
DG
2
ATOM
A
C1'
DG
1
2
1.00
1
C
7.33
13.397
17.743
18.821
A
N9
DG
2
ATOM
A
N9
DG
1
2
1.00
1
N
7.79
12.065
18.010
18.830
A
C8
DG
2
ATOM
A
C8
DG
1
2
1.00
1
C
6.65
11.301
16.960
18.679
A
N7
DG
2
ATOM
A
N7
DG
1
2
1.00
1
N
2.35
12.220
15.919
18.597
A
C5
DG
2
ATOM
A
C5
DG
1
2
1.00
1
C
6.98
12.007
14.541
18.430
A
C6
DG
2
ATOM
A
C6
DG
1
2
1.00
1
C
9.54
10.927
13.965
18.342
A
O6
DG
2
ATOM
A
O6
DG
1
2
1.00
1
O
6.90
13.198
13.834
18.391
A
N1
DG
2
ATOM
A
N1
DG
1
2
1.00
1
N
9.83
14.440
14.407
18.504
A
C2
DG
2
ATOM
A
C2
DG
1
2
1.00
1
C
2.85
15.495
13.626
18.482
A
N2
DG
2
ATOM
A
N2
DG
1
2
1.00
1
N
2.01
14.644
15.699
18.663
A
N3
DG
2
ATOM
A
N3
DG
1
2
1.00
1
N
7.39
13.494
16.392
18.691
A
C4
DG
2
ATOM
A
C4
DG
1
2
1.00
1
C
31.53
17.534
22.042
18.075
A
P
DA
3
ATOM
A
P
DA
1
3
1.00
1
P
31.06
18.073
22.637
19.330
A
OP1
DA
3
ATOM
A
OP1
DA
1
3
1.00
1
O
28.99
16.788
22.883
17.101
A
OP2
DA
3
ATOM
A
OP2
DA
1
3
1.00
1
O
30.21
18.740
21.338
17.289
A
O5'
DA
3
ATOM
A
O5'
DA
1
3
1.00
1
O
23.22
19.598
20.449
17.996
A
C5'
DA
3
ATOM
A
C5'
DA
1
3
1.00
1
C
18.82
19.851
19.155
17.237
A
C4'
DA
3
ATOM
A
C4'
DA
1
3
1.00
1
C
16.53
18.702
18.301
17.146
A
O4'
DA
3
ATOM
A
O4'
DA
1
3
1.00
1
O
15.71
20.327
19.447
15.844
A
C3'
DA
3
ATOM
A
C3'
DA
1
3
1.00
1
C
16.92
21.510
18.681
15.644
A
O3'
DA
3
ATOM
A
O3'
DA
1
3
1.00
1
O
15.63
19.183
18.974
14.996
A
C2'
DA
3
ATOM
A
C2'
DA
1
3
1.00
1
C
16.07
18.517
17.870
15.805
A
C1'
DA
3
ATOM
A
C1'
DA
1
3
1.00
1
C
14.70
17.060
17.826
15.615
A
N9
DA
3
ATOM
A
N9
DA
1
3
1.00
1
N
14.07
16.165
18.859
15.615
A
C8
DA
3
ATOM
A
C8
DA
1
3
1.00
1
C
12.78
14.929
18.497
15.442
A
N7
DA
3
ATOM
A
N7
DA
1
3
1.00
1
N
11.98
15.020
17.118
15.366
A
C5
DA
3
ATOM
A
C5
DA
1
3
1.00
1
C
15.93
14.058
16.132
15.186
A
C6
DA
3
ATOM
A
C6
DA
1
3
1.00
1
C
15.90
12.766
16.399
15.060
A
N6
DA
3
ATOM
A
N6
DA
1
3
1.00
1
N
12.49
14.467
14.875
15.128
A
N1
DA
3
ATOM
A
N1
DA
1
3
1.00
1
N
12.30
15.764
14.625
15.271
A
C2
DA
3
ATOM
A
C2
DA
1
3
1.00
1
C
16.40
16.781
15.447
15.434
A
N3
DA
3
ATOM
A
N3
DA
1
3
1.00
1
N
13.83
16.313
16.704
15.485
A
C4
DA
3
ATOM
A
C4
DA
1
3
1.00
1
C
18.81
22.364
18.806
14.300
A
P
DT
4
ATOM
A
P
DT
1
4
1.00
1
P
21.11
23.797
18.603
14.624
A
OP1
DT
4
ATOM
A
OP1
DT
1
4
1.00
1
O
13.70
21.907
20.015
13.566
A
OP2
DT
4
ATOM
A
OP2
DT
1
4
1.00
1
O
16.62
21.856
17.562
13.477
A
O5'
DT
4
ATOM
A
O5'
DT
1
4
1.00
1
O
15.93
22.036
16.232
13.982
A
C5'
DT
4
ATOM
A
C5'
DT
1
4
1.00
1
C
13.91
21.125
15.259
13.240
A
C4'
DT
4
ATOM
A
C4'
DT
1
4
1.00
1
C
15.60
19.757
15.675
13.300
A
O4'
DT
4
ATOM
A
O4'
DT
1
4
1.00
1
O
11.48
21.474
15.256
11.760
A
C3'
DT
4
ATOM
A
C3'
DT
1
4
1.00
1
C
17.80
22.373
14.183
11.534
A
O3'
DT
4
ATOM
A
O3'
DT
1
4
1.00
1
O
9.95
20.139
15.109
11.089
A
C2'
DT
4
ATOM
A
C2'
DT
1
4
1.00
1
C
12.47
19.124
15.003
12.199
A
C1'
DT
4
ATOM
A
C1'
DT
1
4
1.00
1
C
10.28
17.832
15.692
12.010
A
N1
DT
4
ATOM
A
N1
DT
1
4
1.00
1
N
11.51
16.692
14.931
11.920
A
C2
DT
4
ATOM
A
C2
DT
1
4
1.00
1
C
13.83
16.676
13.723
11.910
A
O2
DT
4
ATOM
A
O2
DT
1
4
1.00
1
O
15.02
15.504
15.582
11.817
A
N3
DT
4
ATOM
A
N3
DT
1
4
1.00
1
N
13.07
15.342
16.937
11.797
A
C4
DT
4
ATOM
A
C4
DT
1
4
1.00
1
C
15.33
14.210
17.389
11.674
A
O4
DT
4
ATOM
A
O4
DT
1
4
1.00
1
O
10.85
16.572
17.683
11.910
A
C5
DT
4
ATOM
A
C5
DT
1
4
1.00
1
C
12.24
16.559
19.213
11.870
A
C7
DT
4
ATOM
A
C7
DT
1
4
1.00
1
C
9.06
17.749
17.054
12.020
A
C6
DT
4
ATOM
A
C6
DT
1
4
1.00
1
C
24.72
23.588
14.250
10.489
A
P
DC
5
ATOM
A
P
DC
1
5
1.00
1
P
27.14
24.604
13.267
10.939
A
OP1
DC
5
ATOM
A
OP1
DC
1
5
1.00
1
O
25.23
23.967
15.656
10.199
A
OP2
DC
5
ATOM
A
OP2
DC
1
5
1.00
1
O
22.42
22.883
13.702
9.170
A
O5'
DC
5
ATOM
A
O5'
DC
1
5
1.00
1
O
17.60
22.488
12.335
9.065
A
C5'
DC
5
ATOM
A
C5'
DC
1
5
1.00
1
C
16.50
21.344
12.155
8.081
A
C4'
DC
5
ATOM
A
C4'
DC
1
5
1.00
1
C
12.38
20.231
12.969
8.519
A
O4'
DC
5
ATOM
A
O4'
DC
1
5
1.00
1
O
13.96
21.697
12.530
6.641
A
C3'
DC
5
ATOM
A
C3'
DC
1
5
1.00
1
C
17.70
21.133
11.578
5.761
A
O3'
DC
5
ATOM
A
O3'
DC
1
5
1.00
1
O
10.61
20.900
13.792
6.477
A
C2'
DC
5
ATOM
A
C2'
DC
1
5
1.00
1
C
11.66
19.687
13.563
7.366
A
C1'
DC
5
ATOM
A
C1'
DC
1
5
1.00
1
C
9.19
18.956
14.787
7.738
A
N1
DC
5
ATOM
A
N1
DC
1
5
1.00
1
N
5.97
17.638
14.683
8.071
A
C2
DC
5
ATOM
A
C2
DC
1
5
1.00
1
C
10.61
17.036
13.622
8.095
A
O2
DC
5
ATOM
A
O2
DC
1
5
1.00
1
O
11.36
16.947
15.797
8.354
A
N3
DC
5
ATOM
A
N3
DC
1
5
1.00
1
N
12.57
17.535
16.980
8.344
A
C4
DC
5
ATOM
A
C4
DC
1
5
1.00
1
C
11.51
16.807
18.055
8.631
A
N4
DC
5
ATOM
A
N4
DC
1
5
1.00
1
N
13.44
18.915
17.112
8.036
A
C5
DC
5
ATOM
A
C5
DC
1
5
1.00
1
C
10.55
19.578
15.983
7.722
A
C6
DC
5
ATOM
A
C6
DC
1
5
1.00
1
C
22.85
22.034
10.655
4.838
A
P
DG
6
ATOM
A
P
DG
1
6
1.00
1
P
18.10
22.656
9.602
5.694
A
OP1
DG
6
ATOM
A
OP1
DG
1
6
1.00
1
O
14.77
22.893
11.545
4.005
A
OP2
DG
6
ATOM
A
OP2
DG
1
6
1.00
1
O
16.04
20.948
9.954
3.873
A
O5'
DG
6
ATOM
A
O5'
DG
1
6
1.00
1
O
15.69
20.006
9.039
4.425
A
C5'
DG
6
ATOM
A
C5'
DG
1
6
1.00
1
C
13.83
18.971
8.532
3.429
A
C4'
DG
6
ATOM
A
C4'
DG
1
6
1.00
1
C
14.10
17.983
9.508
3.023
A
O4'
DG
6
ATOM
A
O4'
DG
1
6
1.00
1
O
11.99
19.647
8.071
2.157
A
C3'
DG
6
ATOM
A
C3'
DG
1
6
1.00
1
C
17.17
18.907
6.985
1.630
A
O3'
DG
6
ATOM
A
O3'
DG
1
6
1.00
1
O
9.11
19.496
9.269
1.257
A
C2'
DG
6
ATOM
A
C2'
DG
1
6
1.00
1
C
7.05
18.146
9.877
1.643
A
C1'
DG
6
ATOM
A
C1'
DG
1
6
1.00
1
C
5.84
18.180
11.347
1.612
A
N9
DG
6
ATOM
A
N9
DG
1
6
1.00
1
N
7.02
19.260
12.185
1.702
A
C8
DG
6
ATOM
A
C8
DG
1
6
1.00
1
C
2.10
18.976
13.451
1.691
A
N7
DG
6
ATOM
A
N7
DG
1
6
1.00
1
N
4.72
17.598
13.444
1.634
A
C5
DG
6
ATOM
A
C5
DG
1
6
1.00
1
C
9.98
16.703
14.530
1.601
A
C6
DG
6
ATOM
A
C6
DG
1
6
1.00
1
C
3.59
16.962
15.722
1.624
A
O6
DG
6
ATOM
A
O6
DG
1
6
1.00
1
O
8.40
15.390
14.123
1.552
A
N1
DG
6
ATOM
A
N1
DG
1
6
1.00
1
N
9.84
14.997
12.822
1.533
A
C2
DG
6
ATOM
A
C2
DG
1
6
1.00
1
C
13.81
13.704
12.608
1.475
A
N2
DG
6
ATOM
A
N2
DG
1
6
1.00
1
N
11.20
15.815
11.784
1.542
A
N3
DG
6
ATOM
A
N3
DG
1
6
1.00
1
N
3.52
17.106
12.172
1.595
A
C4
DG
6
ATOM
A
C4
DG
1
6
1.00
1
C
12.71
16.000
19.065
5.115
A
C1
BDA
7
HETATM
B
C1
BDA
2
1.00
1
C
15.25
17.112
19.838
5.052
A
C2
BDA
7
HETATM
B
C2
BDA
2
1.00
1
C
17.32
18.336
19.275
4.895
A
C3
BDA
7
HETATM
B
C3
BDA
2
1.00
1
C
20.92
18.456
17.816
4.793
A
C4
BDA
7
HETATM
B
C4
BDA
2
1.00
1
C
21.47
19.707
17.103
4.674
A
O4
BDA
7
HETATM
B
O4
BDA
2
1.00
1
O
12.54
17.265
16.997
4.876
A
C5
BDA
7
HETATM
B
C5
BDA
2
1.00
1
C
11.38
17.333
15.560
4.813
A
C6
BDA
7
HETATM
B
C6
BDA
2
1.00
1
C
12.12
18.405
15.003
4.688
A
O6
BDA
7
HETATM
B
O6
BDA
2
1.00
1
O
9.33
16.094
14.841
4.913
A
C7
BDA
7
HETATM
B
C7
BDA
2
1.00
1
C
8.26
16.114
13.411
4.856
A
C8
BDA
7
HETATM
B
C8
BDA
2
1.00
1
C
11.07
17.285
12.740
4.689
A
O8
BDA
7
HETATM
B
O8
BDA
2
1.00
1
O
7.22
14.899
12.677
4.896
A
C9
BDA
7
HETATM
B
C9
BDA
2
1.00
1
C
7.42
14.996
11.195
4.902
A
C10
BDA
7
HETATM
B
C10
BDA
2
1.00
1
C
14.24
15.549
10.849
6.191
A
O10
BDA
7
HETATM
B
O10
BDA
2
1.00
1
O
2.78
13.630
10.484
4.709
A
C11
BDA
7
HETATM
B
C11
BDA
2
1.00
1
C
5.10
12.565
11.145
5.570
A
C12
BDA
7
HETATM
B
C12
BDA
2
1.00
1
C
12.28
12.934
11.091
6.959
A
O12
BDA
7
HETATM
B
O12
BDA
2
1.00
1
O
12.64
11.238
10.429
5.350
A
C13
BDA
7
HETATM
B
C13
BDA
2
1.00
1
C
23.18
10.520
10.676
4.375
A
O13
BDA
7
HETATM
B
O13
BDA
2
1.00
1
O
11.57
10.832
9.347
6.340
A
C14
BDA
7
HETATM
B
C14
BDA
2
1.00
1
C
2.80
12.396
12.579
5.106
A
C15
BDA
7
HETATM
B
C15
BDA
2
1.00
1
C
8.24
13.694
13.347
5.041
A
C16
BDA
7
HETATM
B
C16
BDA
2
1.00
1
C
9.04
13.675
14.777
5.110
A
C17
BDA
7
HETATM
B
C17
BDA
2
1.00
1
C
16.01
12.519
15.480
5.236
A
O17
BDA
7
HETATM
B
O17
BDA
2
1.00
1
O
10.93
14.890
15.509
5.044
A
C18
BDA
7
HETATM
B
C18
BDA
2
1.00
1
C
13.27
14.819
16.940
5.110
A
C19
BDA
7
HETATM
B
C19
BDA
2
1.00
1
C
15.89
13.770
17.572
5.229
A
O19
BDA
7
HETATM
B
O19
BDA
2
1.00
1
O
13.16
16.051
17.654
5.030
A
C20
BDA
7
HETATM
B
C20
BDA
2
1.00
1
C
28.12
20.942
17.717
4.588
A
C21
BDA
7
HETATM
B
C21
BDA
2
1.00
1
C
12.83
16.743
10.049
6.188
A
C1'
BDA
7
HETATM
B
C1'
BDA
2
1.00
1
C
15.30
17.456
10.099
7.549
A
C2'
BDA
7
HETATM
B
C2'
BDA
2
1.00
1
C
17.84
16.628
9.429
8.658
A
C3'
BDA
7
HETATM
B
C3'
BDA
2
1.00
1
C
22.41
17.478
9.558
9.840
A
N3'
BDA
7
HETATM
B
N3'
BDA
2
1.00
1
N
17.28
16.280
7.960
8.260
A
C4'
BDA
7
HETATM
B
C4'
BDA
2
1.00
1
C
18.11
17.413
7.036
8.227
A
O4'
BDA
7
HETATM
B
O4'
BDA
2
1.00
1
O
15.91
15.604
8.009
6.873
A
C5'
BDA
7
HETATM
B
C5'
BDA
2
1.00
1
C
13.96
16.399
8.693
5.853
A
O5'
BDA
7
HETATM
B
O5'
BDA
2
1.00
1
O
16.41
15.321
6.584
6.422
A
C6'
BDA
7
HETATM
B
C6'
BDA
2
1.00
1
C
30.90
16.806
9.081
11.034
A
C7'
BDA
7
HETATM
B
C7'
BDA
2
1.00
1
C
37.32
17.458
9.663
12.277
A
C8'
BDA
7
HETATM
B
C8'
BDA
2
1.00
1
C
38.09
16.880
10.840
12.888
A
C9A
BDA
7
HETATM
B
C9A
BDA
2
0.50
1
C
43.55
18.650
9.076
12.882
A
C9B
BDA
7
HETATM
B
C9B
BDA
2
0.50
1
C
39.71
8.572
16.905
17.906
A
O
HOH
8
HETATM
C
O
HOH
3
1.00
1
O
35.71
18.722
20.854
8.906
A
O
HOH
9
HETATM
C
O
HOH
3
1.00
1
O
42.27
12.322
20.544
14.950
A
O
HOH
10
HETATM
C
O
HOH
3
1.00
1
O
59.78
19.722
7.768
9.878
A
O
HOH
11
HETATM
C
O
HOH
3
1.00
1
O
53.75
8.139
10.500
25.318
A
O
HOH
12
HETATM
C
O
HOH
3
1.00
1
O
40.31
19.842
22.115
12.212
A
O
HOH
13
HETATM
C
O
HOH
3
1.00
1
O
36.98
20.008
27.454
18.011
A
O
HOH
14
HETATM
C
O
HOH
3
1.00
1
O
46.13
12.335
19.648
12.087
A
O
HOH
15
HETATM
C
O
HOH
3
1.00
1
O
0.035373
0.000000
0.000000
0.000000
0.035373
0.000000
0.000000
0.000000
0.018598
0.00000
0.00000
0.00000
Hu, G.G.
Shui, X.
Leng, F.
Priebe, W.
Chaires, J.B.
Williams, L.D.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
28.270
28.270
53.770
C62 H66 N2 O20 2
1159.189
4-METHYLBENZYL-N-BIS[DAUNOMYCIN]
WP631
non-polymer
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C9 H14 N3 O7 P
307.197
y
2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O7 P
347.221
y
2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
H2 O
18.015
WATER
non-polymer
Y
1
N
C
Y
2
N
C
Y
3
N
C
Y
4
N
C
N
5
N
O
Y
6
N
C
N
7
N
C
N
8
N
O
Y
9
N
C
Y
10
N
C
N
11
N
O
Y
12
N
C
N
13
S
C
N
14
N
O
N
15
N
C
N
16
S
C
N
17
N
O
N
18
N
C
N
19
N
O
N
20
N
C
N
21
N
C
Y
22
N
C
Y
23
N
C
N
24
N
O
Y
25
N
C
N
26
N
C
N
27
N
O
Y
28
N
C
N
29
N
C
N
30
R
C
N
31
N
C
N
32
S
C
N
33
N
N
N
34
S
C
N
35
N
O
N
36
S
C
N
37
N
O
N
38
N
C
N
39
N
C
Y
40
N
C
Y
41
N
C
Y
42
N
C
Y
43
N
C
Y
44
N
C
Y
45
N
C
Y
46
N
C
N
47
N
O
Y
48
N
C
N
49
N
C
N
50
N
O
Y
51
N
C
Y
52
N
C
N
53
N
O
Y
54
N
C
N
55
S
C
N
56
N
O
N
57
N
C
N
58
S
C
N
59
N
O
N
60
N
C
N
61
N
O
N
62
N
C
N
63
N
C
Y
64
N
C
Y
65
N
C
N
66
N
O
Y
67
N
C
N
68
N
C
N
69
N
O
Y
70
N
C
N
71
N
C
N
72
R
C
N
73
N
C
N
74
S
C
N
75
N
N
N
76
S
C
N
77
N
O
N
78
S
C
N
79
N
O
N
80
N
C
N
81
N
C
Y
82
N
C
Y
83
N
C
Y
84
N
C
N
85
N
H
N
86
N
H
N
87
N
H
N
88
N
H
N
89
N
H
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
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
H
N
112
N
H
N
113
N
H
N
114
N
H
N
115
N
H
N
116
N
H
N
117
N
H
N
118
N
H
N
119
N
H
N
120
N
H
N
121
N
H
N
122
N
H
N
123
N
H
N
124
N
H
N
125
N
H
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
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
O
N
152
N
P
N
153
N
O
N
154
N
O
N
155
N
O
N
156
N
C
N
157
R
C
N
158
N
O
N
159
S
C
N
160
N
O
N
161
N
C
N
162
R
C
Y
163
N
N
Y
164
N
C
Y
165
N
N
Y
166
N
C
Y
167
N
C
N
168
N
N
Y
169
N
N
Y
170
N
C
Y
171
N
N
Y
172
N
C
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
H
N
185
N
H
N
186
N
H
N
187
N
O
N
188
N
P
N
189
N
O
N
190
N
O
N
191
N
O
N
192
N
C
N
193
R
C
N
194
N
O
N
195
S
C
N
196
N
O
N
197
N
C
N
198
R
C
N
199
N
N
N
200
N
C
N
201
N
O
N
202
N
N
N
203
N
C
N
204
N
N
N
205
N
C
N
206
N
C
N
207
N
H
N
208
N
H
N
209
N
H
N
210
N
H
N
211
N
H
N
212
N
H
N
213
N
H
N
214
N
H
N
215
N
H
N
216
N
H
N
217
N
H
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
O
N
222
N
P
N
223
N
O
N
224
N
O
N
225
N
O
N
226
N
C
N
227
R
C
N
228
N
O
N
229
S
C
N
230
N
O
N
231
N
C
N
232
R
C
Y
233
N
N
Y
234
N
C
Y
235
N
N
Y
236
N
C
N
237
N
C
N
238
N
O
N
239
N
N
N
240
N
C
N
241
N
N
N
242
N
N
Y
243
N
C
N
244
N
H
N
245
N
H
N
246
N
H
N
247
N
H
N
248
N
H
N
249
N
H
N
250
N
H
N
251
N
H
N
252
N
H
N
253
N
H
N
254
N
H
N
255
N
H
N
256
N
H
N
257
N
H
N
258
N
O
N
259
N
P
N
260
N
O
N
261
N
O
N
262
N
O
N
263
N
C
N
264
R
C
N
265
N
O
N
266
S
C
N
267
N
O
N
268
N
C
N
269
R
C
N
270
N
N
N
271
N
C
N
272
N
O
N
273
N
N
N
274
N
C
N
275
N
O
N
276
N
C
N
277
N
C
N
278
N
C
N
279
N
H
N
280
N
H
N
281
N
H
N
282
N
H
N
283
N
H
N
284
N
H
N
285
N
H
N
286
N
H
N
287
N
H
N
288
N
H
N
289
N
H
N
290
N
H
N
291
N
H
N
292
N
H
N
293
N
H
N
294
N
O
N
295
N
H
N
296
N
H
Y
1
N
doub
Y
2
N
sing
N
3
N
sing
Y
4
N
sing
N
5
N
sing
Y
6
N
doub
N
7
N
sing
N
8
N
sing
Y
9
N
sing
N
10
N
sing
N
11
N
sing
Y
12
N
doub
N
13
N
doub
N
14
N
sing
Y
15
N
sing
Y
16
N
doub
N
17
N
sing
Y
18
N
doub
N
19
N
sing
N
20
N
sing
Y
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
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
sing
N
39
N
sing
N
40
N
sing
Y
41
N
doub
N
42
N
sing
Y
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
doub
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
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
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
Y
76
N
doub
Y
77
N
sing
Y
78
N
sing
N
79
N
sing
Y
80
N
doub
N
81
N
sing
Y
82
N
doub
Y
83
N
sing
N
84
N
sing
Y
85
N
sing
N
86
N
sing
Y
87
N
doub
N
88
N
sing
N
89
N
sing
Y
90
N
sing
N
91
N
sing
N
92
N
sing
Y
93
N
doub
N
94
N
doub
N
95
N
sing
Y
96
N
sing
Y
97
N
doub
N
98
N
sing
Y
99
N
doub
N
100
N
sing
N
101
N
sing
Y
102
N
sing
N
103
N
sing
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
doub
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
Y
122
N
doub
N
123
N
sing
Y
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
doub
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
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
sing
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
Y
157
N
doub
Y
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
doub
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
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
Y
184
N
sing
Y
185
N
sing
Y
186
N
doub
N
187
N
sing
Y
188
N
sing
Y
189
N
sing
Y
190
N
doub
N
191
N
sing
Y
192
N
doub
N
193
N
sing
N
194
N
sing
Y
195
N
sing
Y
196
N
doub
N
197
N
sing
Y
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
doub
N
202
N
sing
N
203
N
sing
N
204
N
sing
N
205
N
sing
N
206
N
sing
N
207
N
sing
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
N
224
N
doub
N
225
N
sing
N
226
N
doub
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
doub
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
doub
N
237
N
sing
N
238
N
sing
N
239
N
sing
N
240
N
sing
N
241
N
sing
N
242
N
sing
N
243
N
sing
N
244
N
sing
N
245
N
sing
N
246
N
sing
N
247
N
sing
N
248
N
sing
N
249
N
sing
N
250
N
sing
N
251
N
sing
N
252
N
sing
N
253
N
sing
N
254
N
sing
N
255
N
sing
N
256
N
sing
Y
257
N
sing
Y
258
N
sing
Y
259
N
doub
N
260
N
sing
Y
261
N
sing
N
262
N
sing
Y
263
N
doub
N
264
N
doub
N
265
N
sing
N
266
N
sing
N
267
N
sing
N
268
N
sing
N
269
N
doub
N
270
N
sing
N
271
N
sing
N
272
N
sing
N
273
N
sing
N
274
N
sing
N
275
N
doub
N
276
N
sing
N
277
N
sing
N
278
N
sing
N
279
N
sing
N
280
N
sing
N
281
N
sing
N
282
N
sing
N
283
N
sing
N
284
N
sing
N
285
N
sing
N
286
N
sing
N
287
N
sing
N
288
N
sing
N
289
N
sing
N
290
N
sing
N
291
N
sing
N
292
N
sing
N
293
N
sing
N
294
N
sing
N
295
N
sing
N
296
N
sing
N
297
N
sing
N
298
N
doub
N
299
N
sing
N
300
N
sing
N
301
N
sing
N
302
N
doub
N
303
N
sing
N
304
N
sing
N
305
N
doub
N
306
N
sing
N
307
N
sing
N
308
N
sing
N
309
N
sing
N
310
N
sing
N
311
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
36
5940
5946
10.1021/bi9705218
9166763
Structure of a DNA-bisdaunomycin complex.
1997
10.2210/pdb1agl/pdb
pdb_00001agl
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
294.00
1
AREA DETECTOR
1996-05-01
SDMS
GRAPHITE
SINGLE WAVELENGTH
M
x-ray
1
1.0
ROTATING ANODE
RIGAKU RU200
1809.217
DNA (5'-D(*CP*GP*AP*TP*CP*G)-3')
1
syn
polymer
1159.189
4-METHYLBENZYL-N-BIS[DAUNOMYCIN]
1
syn
non-polymer
18.015
water
8
nat
water
no
no
(DC)(DG)(DA)(DT)(DC)(DG)
CGATCG
A
polydeoxyribonucleotide
n
n
n
n
n
n
1
2.84
56.74
VAPOR DIFFUSION, SITTING DROP
6.50
pH 6.50, VAPOR DIFFUSION, SITTING DROP
ROOM TEMPERATURE
WATER
1
MPD
1
NA CACODYLATE
1
MGCL2
1
SPERMINE_HCL
1
WATER
2
MPD
2
7.237
1
19
A
1
A
6
-0.918
A_DC1:DG6_A
1
1.710
0.410
-0.099
-0.367
-20.524
1
19
A
2
A
5
-0.778
A_DG2:DC5_A
2
2.722
-0.610
-0.312
-0.530
-2.211
1
20
A
3
A
4
4.199
A_DA3:DT4_A
3
-5.817
-0.184
0.214
-0.211
2.211
1
20
A
4
A
3
4.199
A_DT4:DA3_A
4
-5.817
0.184
0.214
-0.211
20.524
1
19
A
5
A
2
-0.778
A_DC5:DG2_A
5
2.722
0.610
-0.312
-0.530
-7.237
1
19
A
6
A
1
-0.918
A_DG6:DC1_A
6
1.709
-0.410
-0.099
-0.367
7.190
31.554
A
A
1
2
-1.909
A
A
6
5
7.184
-1.036
0.884
1.325
AA_DC1DG2:DC5DG6_AA
1
3.211
-5.916
31.378
2.860
-0.312
3.254
36.213
A
A
2
3
4.661
A
A
5
4
3.036
2.873
-0.777
1.720
AA_DG2DA3:DT4DC5_AA
2
-7.839
12.719
35.269
2.373
0.176
3.413
29.976
A
A
3
4
-3.724
A
A
4
3
3.382
-1.925
0.000
-0.596
AA_DA3DT4:DA3DT4_AA
3
0.000
0.000
29.915
-0.741
0.000
3.254
36.213
A
A
4
5
4.661
A
A
3
2
3.036
2.873
0.777
1.720
AA_DT4DC5:DG2DA3_AA
4
7.839
-12.719
35.269
2.373
-0.176
7.190
31.554
A
A
5
6
-1.909
A
A
2
1
7.184
-1.036
-0.884
1.325
AA_DC5DG6:DC1DG2_AA
5
-3.211
5.916
31.378
2.860
0.312
chem_comp_atom
chem_comp_bond
database_2
pdbx_unobs_or_zero_occ_atoms
struct_conn
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Advisory
Data collection
Database references
Derived calculations
Refinement description
1
0
1997-04-29
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
1
4
2024-04-03
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.pdbx_leaving_atom_flag
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1997-03-25
REL
BDA
4-METHYLBENZYL-N-BIS[DAUNOMYCIN]
HOH
water
152D
DDF045
PDB
experimental model
BDA
7
2
BDA
BDA
7
A
HOH
8
3
HOH
HOH
8
A
HOH
9
3
HOH
HOH
9
A
HOH
10
3
HOH
HOH
10
A
HOH
11
3
HOH
HOH
11
A
HOH
12
3
HOH
HOH
12
A
HOH
13
3
HOH
HOH
13
A
HOH
14
3
HOH
HOH
14
A
HOH
15
3
HOH
HOH
15
A
C
1
n
1
DC
1
A
G
2
n
2
DG
2
A
A
3
n
3
DA
3
A
T
4
n
4
DT
4
A
C
5
n
5
DC
5
A
G
6
n
6
DG
6
A
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
0.0000000000
-1.0000000000
0.0000000000
-1.0000000000
0.0000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
8_665
-y+1,-x+1,-z+1/2
crystal symmetry operation
28.2700000000
28.2700000000
26.8850000000
1
3.83
0.60
118.90
122.73
A
A
A
N1
C2
O2
DC
DC
DC
1
1
1
N
1
2.15
0.30
108.30
110.45
A
A
A
O4'
C1'
N9
DG
DG
DG
2
2
2
N
1
-4.47
0.60
122.30
117.83
A
A
A
N3
C2
O2
DT
DT
DT
4
4
4
N
1
-4.27
0.60
122.90
118.63
A
A
A
C6
C5
C7
DT
DT
DT
4
4
4
N
1
4.34
0.60
118.90
123.24
A
A
A
N1
C2
O2
DC
DC
DC
5
5
5
N
1
-4.26
0.70
121.90
117.64
A
A
A
N3
C2
O2
DC
DC
DC
5
5
5
N
PARDNA.PRO
TOPDNA.PRO
0.3140000
0.1990000
0.1990000
2.200
10.000
1061
10.000
97.400
RANDOM
1
3.000
MOLECULAR REPLACEMENT
DDF045
TR
isotropic
TR
isotropic
2.200
10.000
8
170
42
120
0
0.014
3.10
0.2850000
2.30
111
82.80
fix
fix
1.800
12.000
1AGL
11192
2058
0.000
0.0700000
1
5.5000
6.760
93.000
refinement
X-PLOR
data collection
ADSC
STRUCTURE OF A DNA-BISDAUNOMYCIN COMPLEX
1
N
N
2
N
N
3
N
N
covale
1.355
none
A
BDA
7
B
C9A
BDA
1_555
A
BDA
7
B
C9A
BDA
8_665
covale
1.360
none
A
BDA
7
B
C9B
BDA
1_555
A
BDA
7
B
C9B
BDA
8_665
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
A
DG
6
A
N1
DG
6
8_665
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
A
DG
6
A
O6
DG
6
8_665
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
A
DG
6
A
N2
DG
6
8_665
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
A
DC
5
A
N3
DC
5
8_665
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
A
DC
5
A
O2
DC
5
8_665
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
A
DC
5
A
N4
DC
5
8_665
hydrog
WATSON-CRICK
A
DA
3
A
N1
DA
3
1_555
A
DT
4
A
N3
DT
4
8_665
hydrog
WATSON-CRICK
A
DA
3
A
N6
DA
3
1_555
A
DT
4
A
O4
DT
4
8_665
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
A
DA
3
A
N1
DA
3
8_665
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
A
DA
3
A
N6
DA
3
8_665
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
A
DG
2
A
N1
DG
2
8_665
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
A
DG
2
A
O6
DG
2
8_665
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
A
DG
2
A
N2
DG
2
8_665
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
A
DC
1
A
N3
DC
1
8_665
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
A
DC
1
A
O2
DC
1
8_665
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
A
DC
1
A
N4
DC
1
8_665
DNA
RIGHT HANDED DNA, DOUBLE HELIX, COMPLEXED WITH DRUG, DNA
1AGL
PDB
1
1AGL
1
6
1AGL
1
6
1AGL
A
1
1
6
BINDING SITE FOR RESIDUE BDA A 7
A
BDA
7
Software
8
A
DC
1
A
DC
1
8
8_665
A
DG
2
A
DG
2
8
8_665
A
DA
3
A
DA
3
8
8_665
A
DT
4
A
DT
4
8
8_665
A
DT
4
A
DT
4
8
1_555
A
DC
5
A
DC
5
8
1_555
A
DG
6
A
DG
6
8
1_555
A
HOH
11
C
HOH
8
1_555
92
P 41 21 2