0.038476
0.000000
0.000000
0.000000
0.022712
0.000000
0.000000
0.000000
0.015011
0.00000
0.00000
0.00000
Aymani, J.
Coll, M.
Van Der Marel, G.A.
Van Boom, J.H.
Wang, A.H.-J.
Rich, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
25.990
44.030
66.620
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
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
N
108
N
O
N
109
N
P
N
110
N
O
N
111
N
O
N
112
N
O
N
113
N
C
N
114
R
C
N
115
N
O
N
116
S
C
N
117
N
O
N
118
N
C
N
119
R
C
N
120
N
N
N
121
N
C
N
122
N
O
N
123
N
N
N
124
N
C
N
125
N
O
N
126
N
C
N
127
N
C
N
128
N
C
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
O
N
145
N
H
N
146
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
N
113
N
sing
N
114
N
sing
N
115
N
doub
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
sing
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
sing
N
128
N
sing
N
129
N
sing
N
130
N
sing
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
doub
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
87
2526
2530
10.1073/pnas.87.7.2526
2320572
Molecular structure of nicked DNA: a substrate for DNA repair enzymes.
1990
US
Biochemistry
BICHAW
0033
0006-2960
28
310
320
Molecular Structure of the Netropsin-d(CGCGATATCGCG) Complex. DNA Conformation in an Alternating AT Segment
1989
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
84
8385
8389
A Bifurcated Hydrogen-Bonded Conformation in the d(*A(dot)*T) Base Pairs of the DNA Dodecamer d(CGCAAATTTGCG) and Its Complex With Distamycin
1987
UK
Nature
NATUAS
0006
0028-0836
287
755
Crystal Structure Analysis of a Complete Turn of B-DNA
1980
10.2210/pdb1ndn/pdb
pdb_00001ndn
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
298.00
1
DIFFRACTOMETER
RIGAKU AFC-5R
x-ray
1
1.0
ROTATING ANODE
3681.420
DNA (5'-D(*CP*GP*CP*GP*AP*AP*AP*AP*CP*GP*CP*G)-3')
1
syn
polymer
1800.203
DNA (5'-D(*CP*GP*CP*GP*TP*T)-3')
1
syn
polymer
1800.203
DNA (5'-D(*TP*TP*CP*GP*CP*G)-3')
1
syn
polymer
18.015
water
61
nat
water
no
no
(DC)(DG)(DC)(DG)(DA)(DA)(DA)(DA)(DC)(DG)(DC)(DG)
CGCGAAAACGCG
A
polydeoxyribonucleotide
no
no
(DC)(DG)(DC)(DG)(DT)(DT)
CGCGTT
B
polydeoxyribonucleotide
no
no
(DT)(DT)(DC)(DG)(DC)(DG)
TTCGCG
C
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
2.62
53.01
VAPOR DIFFUSION
5.00
pH 5.00, VAPOR DIFFUSION, temperature 277.00K
277.00
WATER
1
MPD
1
MGCL2
1
NA CACODYLATE
1
SPERMINE_HCL
1
WATER
2
MPD
2
-8.690
1
19
A
1
C
24
-1.317
A_DC1:DG24_C
1
-0.583
0.028
-0.233
-0.104
-9.210
1
19
A
2
C
23
-2.823
A_DG2:DC23_C
2
-0.057
-0.037
-0.196
-0.125
-12.061
1
19
A
3
C
22
-5.990
A_DC3:DG22_C
3
-5.356
-0.016
0.457
-0.104
13.062
1
19
A
4
C
21
-4.742
A_DG4:DC21_C
4
-5.646
-0.079
0.510
-0.089
13.723
1
20
A
5
C
20
-6.492
A_DA5:DT20_C
5
-27.390
0.472
0.325
-0.102
-1.884
1
20
A
6
C
19
-5.836
A_DA6:DT19_C
6
2.523
0.481
-1.022
-0.212
11.274
1
20
A
7
B
18
-2.732
A_DA7:DT18_B
7
5.281
0.378
-0.030
-0.052
-2.184
1
20
A
8
B
17
-3.273
A_DA8:DT17_B
8
-4.808
0.387
-0.551
-0.119
-23.520
1
19
A
9
B
16
-2.698
A_DC9:DG16_B
9
-9.178
-0.016
0.126
-0.021
-23.987
1
19
A
10
B
15
-1.257
A_DG10:DC15_B
10
-7.475
-0.061
-1.274
-0.092
5.789
1
19
A
11
B
14
0.789
A_DC11:DG14_B
11
-15.520
0.125
-0.678
-0.170
-21.023
1
19
A
12
B
13
-2.307
A_DG12:DC13_B
12
-7.616
-0.109
-0.572
-0.021
4.003
43.403
A
A
1
2
-25.859
C
C
24
23
4.297
-18.384
-1.157
0.147
AA_DC1DG2:DC23DG24_CC
1
-10.351
14.559
38.149
2.627
0.197
3.139
37.441
A
A
2
3
-1.602
C
C
23
22
3.134
-1.020
-0.452
0.692
AA_DG2DC3:DG22DC23_CC
2
-8.158
12.807
36.559
1.207
-0.336
2.247
29.974
A
A
3
4
-15.490
C
C
22
21
2.423
-7.920
0.225
0.355
AA_DC3DG4:DC21DG22_CC
3
-0.218
0.427
28.931
1.873
-0.468
2.771
39.284
A
A
4
5
18.174
C
C
21
20
3.191
11.958
-0.433
-1.022
AA_DG4DA5:DT20DC21_CC
4
-7.850
11.930
36.683
-2.867
-0.240
3.696
38.497
A
A
5
6
-15.374
C
C
20
19
3.831
-10.028
-0.481
0.033
AA_DA5DA6:DT19DT20_CC
5
0.299
-0.458
37.215
1.508
0.773
2.462
40.675
A
A
6
7
5.885
C
B
19
18
2.437
4.034
-0.845
-1.056
AA_DA6DA7:DT18DT19_BC
6
-11.311
16.499
38.933
-1.863
0.255
3.529
40.779
A
A
7
8
11.156
B
B
18
17
3.599
7.666
-1.409
-1.279
AA_DA7DA8:DT17DT18_BB
7
-9.331
13.578
39.023
-2.779
0.873
3.252
37.918
A
A
8
9
-25.935
B
B
17
16
3.533
-16.264
-0.585
0.009
AA_DA8DC9:DG16DT17_BB
8
-6.172
9.843
33.823
2.308
0.029
3.685
31.745
A
A
9
10
15.912
B
B
16
15
3.757
8.315
0.232
1.282
AA_DC9DG10:DC15DG16_BB
9
13.838
-26.479
27.424
0.472
2.691
2.528
37.008
A
A
10
11
-3.125
B
B
15
14
2.372
-1.942
-0.885
0.004
AA_DG10DC11:DG14DC15_BB
10
-13.138
21.139
34.621
0.209
0.023
4.351
37.669
A
A
11
12
22.861
B
B
14
13
4.299
14.351
0.431
0.932
AA_DC11DG12:DC13DG14_BB
11
5.915
-9.423
34.429
-1.139
0.397
chem_comp_atom
chem_comp_bond
database_2
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
1
0
1992-07-14
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
BNL
Y
BNL
1992-01-15
REL
HOH
water
HOH
27
4
HOH
HOH
27
A
HOH
28
4
HOH
HOH
28
A
HOH
30
4
HOH
HOH
30
A
HOH
32
4
HOH
HOH
32
A
HOH
35
4
HOH
HOH
35
A
HOH
36
4
HOH
HOH
36
A
HOH
41
4
HOH
HOH
41
A
HOH
42
4
HOH
HOH
42
A
HOH
44
4
HOH
HOH
44
A
HOH
45
4
HOH
HOH
45
A
HOH
48
4
HOH
HOH
48
A
HOH
50
4
HOH
HOH
50
A
HOH
51
4
HOH
HOH
51
A
HOH
52
4
HOH
HOH
52
A
HOH
54
4
HOH
HOH
54
A
HOH
59
4
HOH
HOH
59
A
HOH
60
4
HOH
HOH
60
A
HOH
63
4
HOH
HOH
63
A
HOH
64
4
HOH
HOH
64
A
HOH
66
4
HOH
HOH
66
A
HOH
67
4
HOH
HOH
67
A
HOH
68
4
HOH
HOH
68
A
HOH
69
4
HOH
HOH
69
A
HOH
71
4
HOH
HOH
71
A
HOH
74
4
HOH
HOH
74
A
HOH
75
4
HOH
HOH
75
A
HOH
76
4
HOH
HOH
76
A
HOH
77
4
HOH
HOH
77
A
HOH
79
4
HOH
HOH
79
A
HOH
85
4
HOH
HOH
85
A
HOH
82
4
HOH
HOH
82
B
HOH
25
4
HOH
HOH
25
C
HOH
26
4
HOH
HOH
26
C
HOH
29
4
HOH
HOH
29
C
HOH
31
4
HOH
HOH
31
C
HOH
33
4
HOH
HOH
33
C
HOH
34
4
HOH
HOH
34
C
HOH
37
4
HOH
HOH
37
C
HOH
38
4
HOH
HOH
38
C
HOH
39
4
HOH
HOH
39
C
HOH
40
4
HOH
HOH
40
C
HOH
43
4
HOH
HOH
43
C
HOH
46
4
HOH
HOH
46
C
HOH
47
4
HOH
HOH
47
C
HOH
49
4
HOH
HOH
49
C
HOH
53
4
HOH
HOH
53
C
HOH
55
4
HOH
HOH
55
C
HOH
56
4
HOH
HOH
56
C
HOH
57
4
HOH
HOH
57
C
HOH
58
4
HOH
HOH
58
C
HOH
61
4
HOH
HOH
61
C
HOH
62
4
HOH
HOH
62
C
HOH
65
4
HOH
HOH
65
C
HOH
70
4
HOH
HOH
70
C
HOH
72
4
HOH
HOH
72
C
HOH
73
4
HOH
HOH
73
C
HOH
78
4
HOH
HOH
78
C
HOH
80
4
HOH
HOH
80
C
HOH
81
4
HOH
HOH
81
C
HOH
83
4
HOH
HOH
83
C
HOH
84
4
HOH
HOH
84
C
C
1
n
1
DC
1
A
G
2
n
2
DG
2
A
C
3
n
3
DC
3
A
G
4
n
4
DG
4
A
A
5
n
5
DA
5
A
A
6
n
6
DA
6
A
A
7
n
7
DA
7
A
A
8
n
8
DA
8
A
C
9
n
9
DC
9
A
G
10
n
10
DG
10
A
C
11
n
11
DC
11
A
G
12
n
12
DG
12
A
C
13
n
1
DC
13
B
G
14
n
2
DG
14
B
C
15
n
3
DC
15
B
G
16
n
4
DG
16
B
T
17
n
5
DT
17
B
T
18
n
6
DT
18
B
T
19
n
1
DT
19
C
T
20
n
2
DT
20
C
C
21
n
3
DC
21
C
G
22
n
4
DG
22
C
C
23
n
5
DC
23
C
G
24
n
6
DG
24
C
author_and_software_defined_assembly
PISA
3
trimeric
1480
-5
4310
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
4.39
0.70
118.00
122.39
A
A
A
N3
C4
N4
DC
DC
DC
1
1
1
N
1
18.61
1.20
119.70
138.31
A
A
A
C3'
O3'
P
DC
DC
DG
1
1
2
Y
1
-4.91
0.60
128.60
123.69
A
A
A
C5
C6
O6
DG
DG
DG
2
2
2
N
1
10.66
1.20
119.70
130.36
A
A
A
C3'
O3'
P
DG
DG
DC
2
2
3
Y
1
-13.80
1.50
119.60
105.80
A
A
A
OP1
P
OP2
DC
DC
DC
3
3
3
N
1
8.52
1.20
110.70
119.22
A
A
A
O5'
P
OP1
DC
DC
DC
3
3
3
N
1
4.73
0.30
108.30
113.03
A
A
A
O4'
C1'
N1
DC
DC
DC
3
3
3
N
1
7.11
0.70
118.00
125.11
A
A
A
N3
C4
N4
DC
DC
DC
3
3
3
N
1
-5.40
0.70
120.20
114.80
A
A
A
C5
C4
N4
DC
DC
DC
3
3
3
N
1
-8.84
1.20
119.70
110.86
A
A
A
C3'
O3'
P
DC
DC
DG
3
3
4
Y
1
10.72
1.20
110.70
121.42
A
A
A
O5'
P
OP1
DG
DG
DG
4
4
4
N
1
-5.11
0.80
105.90
100.79
A
A
A
O4'
C1'
C2'
DG
DG
DG
4
4
4
N
1
7.78
0.30
108.30
116.08
A
A
A
O4'
C1'
N9
DG
DG
DG
4
4
4
N
1
-3.61
0.60
125.10
121.49
A
A
A
C6
N1
C2
DG
DG
DG
4
4
4
N
1
3.14
0.50
111.50
114.64
A
A
A
C5
C6
N1
DG
DG
DG
4
4
4
N
1
-4.04
0.60
128.60
124.56
A
A
A
C5
C6
O6
DG
DG
DG
4
4
4
N
1
-10.40
1.50
119.60
109.20
A
A
A
OP1
P
OP2
DA
DA
DA
5
5
5
N
1
7.02
0.30
108.30
115.32
A
A
A
O4'
C1'
N9
DA
DA
DA
5
5
5
N
1
4.62
0.60
118.60
123.22
A
A
A
C6
N1
C2
DA
DA
DA
5
5
5
N
1
-5.27
0.50
129.30
124.03
A
A
A
N1
C2
N3
DA
DA
DA
5
5
5
N
1
19.91
1.20
119.70
139.61
A
A
A
C3'
O3'
P
DA
DA
DA
5
5
6
Y
1
-13.82
1.50
119.60
105.78
A
A
A
OP1
P
OP2
DA
DA
DA
6
6
6
N
1
-5.02
0.70
102.20
97.18
A
A
A
C4'
C3'
C2'
DA
DA
DA
6
6
6
N
1
-10.51
0.80
102.40
91.89
A
A
A
C3'
C2'
C1'
DA
DA
DA
6
6
6
N
1
7.82
0.30
108.30
116.12
A
A
A
O4'
C1'
N9
DA
DA
DA
6
6
6
N
1
4.36
0.60
118.60
122.96
A
A
A
C6
N1
C2
DA
DA
DA
6
6
6
N
1
-4.24
0.50
129.30
125.06
A
A
A
N1
C2
N3
DA
DA
DA
6
6
6
N
1
10.65
1.20
119.70
130.35
A
A
A
C3'
O3'
P
DA
DA
DA
6
6
7
Y
1
-9.69
1.50
119.60
109.91
A
A
A
OP1
P
OP2
DA
DA
DA
7
7
7
N
1
-7.61
0.80
102.40
94.79
A
A
A
C3'
C2'
C1'
DA
DA
DA
7
7
7
N
1
10.17
0.30
108.30
118.47
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
1
3.73
0.60
118.60
122.33
A
A
A
C6
N1
C2
DA
DA
DA
7
7
7
N
1
-3.44
0.50
129.30
125.86
A
A
A
N1
C2
N3
DA
DA
DA
7
7
7
N
1
15.53
1.20
119.70
135.23
A
A
A
C3'
O3'
P
DA
DA
DA
7
7
8
Y
1
-9.27
1.50
119.60
110.33
A
A
A
OP1
P
OP2
DA
DA
DA
8
8
8
N
1
12.40
1.60
120.90
133.30
A
A
A
P
O5'
C5'
DA
DA
DA
8
8
8
N
1
-4.06
0.40
104.50
100.44
A
A
A
O4'
C4'
C3'
DA
DA
DA
8
8
8
N
1
5.05
0.30
108.30
113.35
A
A
A
O4'
C1'
N9
DA
DA
DA
8
8
8
N
1
4.14
0.60
118.60
122.74
A
A
A
C6
N1
C2
DA
DA
DA
8
8
8
N
1
-4.51
0.50
129.30
124.79
A
A
A
N1
C2
N3
DA
DA
DA
8
8
8
N
1
7.96
1.20
119.70
127.66
A
A
A
C3'
O3'
P
DA
DA
DC
8
8
9
Y
1
3.03
0.30
108.30
111.33
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
4.80
0.70
118.00
122.80
A
A
A
N3
C4
N4
DC
DC
DC
9
9
9
N
1
28.34
1.20
119.70
148.04
A
A
A
C3'
O3'
P
DC
DC
DG
9
9
10
Y
1
-11.86
1.50
119.60
107.74
A
A
A
OP1
P
OP2
DG
DG
DG
10
10
10
N
1
4.42
0.30
108.30
112.72
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
-4.25
0.60
125.10
120.85
A
A
A
C6
N1
C2
DG
DG
DG
10
10
10
N
1
3.60
0.50
111.50
115.10
A
A
A
C5
C6
N1
DG
DG
DG
10
10
10
N
1
-14.23
1.50
119.60
105.37
A
A
A
OP1
P
OP2
DC
DC
DC
11
11
11
N
1
10.35
1.60
120.90
131.25
A
A
A
P
O5'
C5'
DC
DC
DC
11
11
11
N
1
2.48
0.30
108.30
110.78
A
A
A
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
-2.47
0.40
121.90
119.43
A
A
A
N3
C4
C5
DC
DC
DC
11
11
11
N
1
3.22
0.50
121.00
124.22
A
A
A
C5
C6
N1
DC
DC
DC
11
11
11
N
1
21.29
1.20
119.70
140.99
A
A
A
C3'
O3'
P
DC
DC
DG
11
11
12
Y
1
-10.98
1.50
119.60
108.62
A
A
A
OP1
P
OP2
DG
DG
DG
12
12
12
N
1
4.49
0.30
108.30
112.79
A
A
A
O4'
C1'
N9
DG
DG
DG
12
12
12
N
1
3.14
0.50
111.50
114.64
A
A
A
C5
C6
N1
DG
DG
DG
12
12
12
N
1
-4.59
0.60
128.60
124.01
A
A
A
C5
C6
O6
DG
DG
DG
12
12
12
N
1
-5.43
0.40
104.50
99.07
B
B
B
O4'
C4'
C3'
DC
DC
DC
13
13
13
N
1
-4.89
0.70
102.20
97.31
B
B
B
C4'
C3'
C2'
DC
DC
DC
13
13
13
N
1
7.83
1.20
119.70
127.53
B
B
B
C3'
O3'
P
DC
DC
DG
13
13
14
Y
1
-11.44
1.50
119.60
108.16
B
B
B
OP1
P
OP2
DG
DG
DG
14
14
14
N
1
6.72
0.30
108.30
115.02
B
B
B
O4'
C1'
N9
DG
DG
DG
14
14
14
N
1
3.10
0.50
111.50
114.60
B
B
B
C5
C6
N1
DG
DG
DG
14
14
14
N
1
-3.75
0.60
128.60
124.85
B
B
B
C5
C6
O6
DG
DG
DG
14
14
14
N
1
16.60
1.20
119.70
136.30
B
B
B
C3'
O3'
P
DG
DG
DC
14
14
15
Y
1
5.82
0.30
108.30
114.12
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
-2.42
0.40
121.90
119.48
B
B
B
N3
C4
C5
DC
DC
DC
15
15
15
N
1
3.72
0.50
121.00
124.72
B
B
B
C5
C6
N1
DC
DC
DC
15
15
15
N
1
-10.54
1.50
119.60
109.06
B
B
B
OP1
P
OP2
DG
DG
DG
16
16
16
N
1
-6.96
0.80
109.40
102.44
B
B
B
O5'
C5'
C4'
DG
DG
DG
16
16
16
N
1
4.33
0.30
108.30
112.63
B
B
B
O4'
C1'
N9
DG
DG
DG
16
16
16
N
1
9.54
1.20
119.70
129.24
B
B
B
C3'
O3'
P
DG
DG
DT
16
16
17
Y
1
-9.65
1.60
120.90
111.25
B
B
B
P
O5'
C5'
DT
DT
DT
17
17
17
N
1
5.05
0.30
108.30
113.35
B
B
B
O4'
C1'
N1
DT
DT
DT
17
17
17
N
1
-4.36
0.60
127.20
122.84
B
B
B
C2
N3
C4
DT
DT
DT
17
17
17
N
1
3.62
0.60
115.20
118.82
B
B
B
N3
C4
C5
DT
DT
DT
17
17
17
N
1
-4.48
0.60
122.30
117.82
B
B
B
N3
C2
O2
DT
DT
DT
17
17
17
N
1
-4.61
0.60
119.90
115.29
B
B
B
N3
C4
O4
DT
DT
DT
17
17
17
N
1
11.61
1.20
119.70
131.31
B
B
B
C3'
O3'
P
DT
DT
DT
17
17
18
Y
1
-9.31
1.50
119.60
110.29
B
B
B
OP1
P
OP2
DT
DT
DT
18
18
18
N
1
8.55
0.30
108.30
116.85
B
B
B
O4'
C1'
N1
DT
DT
DT
18
18
18
N
1
-4.20
0.60
127.20
123.00
B
B
B
C2
N3
C4
DT
DT
DT
18
18
18
N
1
-4.43
0.60
122.30
117.87
B
B
B
N3
C2
O2
DT
DT
DT
18
18
18
N
1
-4.22
0.60
119.90
115.68
B
B
B
N3
C4
O4
DT
DT
DT
18
18
18
N
1
5.96
0.30
108.30
114.26
C
C
C
O4'
C1'
N1
DT
DT
DT
19
19
19
N
1
-4.42
0.60
127.20
122.78
C
C
C
C2
N3
C4
DT
DT
DT
19
19
19
N
1
-5.28
0.60
122.30
117.02
C
C
C
N3
C2
O2
DT
DT
DT
19
19
19
N
1
-4.57
0.60
119.90
115.33
C
C
C
N3
C4
O4
DT
DT
DT
19
19
19
N
1
10.00
1.20
119.70
129.70
C
C
C
C3'
O3'
P
DT
DT
DT
19
19
20
Y
1
-11.41
1.50
119.60
108.19
C
C
C
OP1
P
OP2
DT
DT
DT
20
20
20
N
1
-5.25
0.80
109.40
104.15
C
C
C
O5'
C5'
C4'
DT
DT
DT
20
20
20
N
1
17.31
0.30
108.30
125.61
C
C
C
O4'
C1'
N1
DT
DT
DT
20
20
20
N
1
-3.80
0.60
127.20
123.40
C
C
C
C2
N3
C4
DT
DT
DT
20
20
20
N
1
-11.25
1.50
119.60
108.35
C
C
C
OP1
P
OP2
DC
DC
DC
21
21
21
N
1
4.07
0.30
108.30
112.37
C
C
C
O4'
C1'
N1
DC
DC
DC
21
21
21
N
1
24.46
1.20
119.70
144.16
C
C
C
C3'
O3'
P
DC
DC
DG
21
21
22
Y
1
-13.22
1.50
119.60
106.38
C
C
C
OP1
P
OP2
DG
DG
DG
22
22
22
N
1
-6.13
1.00
110.10
103.97
C
C
C
C1'
O4'
C4'
DG
DG
DG
22
22
22
N
1
31.18
1.20
119.70
150.88
C
C
C
C3'
O3'
P
DG
DG
DC
22
22
23
Y
1
-13.70
1.50
119.60
105.90
C
C
C
OP1
P
OP2
DC
DC
DC
23
23
23
N
1
3.72
0.30
108.30
112.02
C
C
C
O4'
C1'
N1
DC
DC
DC
23
23
23
N
1
9.22
1.20
119.70
128.92
C
C
C
C3'
O3'
P
DC
DC
DG
23
23
24
Y
1
-10.72
1.50
119.60
108.88
C
C
C
OP1
P
OP2
DG
DG
DG
24
24
24
N
1
4.47
0.30
108.30
112.77
C
C
C
O4'
C1'
N9
DG
DG
DG
24
24
24
N
1
A
A
O3'
P
DC
DG
3
4
0.096
0.012
1.607
1.703
Y
1
A
A
O3'
P
DA
DA
5
6
-0.091
0.012
1.607
1.516
Y
1
A
A
P
OP1
DA
DA
6
6
0.130
0.017
1.485
1.615
N
1
A
A
O3'
P
DC
DG
9
10
-0.085
0.012
1.607
1.522
Y
1
A
A
O3'
P
DC
DG
11
12
-0.082
0.012
1.607
1.525
Y
1
B
B
N3
C4
DC
DC
15
15
0.043
0.007
1.335
1.378
N
1
C
C
C2'
C1'
DT
DT
20
20
0.064
0.010
1.519
1.583
N
1
C
C
O3'
P
DC
DG
21
22
-0.099
0.012
1.607
1.508
Y
1
C
C
O4'
C1'
DG
DG
22
22
0.075
0.011
1.420
1.495
N
1
C
C
O3'
P
DG
DC
22
23
-0.111
0.012
1.607
1.496
Y
1
C
C
P
O5'
DC
DC
23
23
0.091
0.010
1.593
1.684
N
0.1860000
3.000
553
1
2.000
MOLECULAR REPLACEMENT
TR
isotropic
TR
isotropic
3.000
61
544
0
483
0
fix
fix
3.000
1NDN
553
2.000
1
model building
ULTIMA
refinement
NUCLSQ
phasing
ULTIMA
MOLECULAR STRUCTURE OF NICKED DNA. MODEL T4
1
N
N
2
N
N
3
N
N
4
N
N
4
N
N
4
N
N
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
C
DG
24
C
N1
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
C
DG
24
C
O6
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
C
DG
24
C
N2
DG
6
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
C
DC
23
C
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
C
DC
23
C
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
C
DC
23
C
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
C
DG
22
C
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
C
DG
22
C
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
C
DG
22
C
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
C
DC
21
C
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
C
DC
21
C
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
C
DC
21
C
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N1
DA
5
1_555
C
DT
20
C
N3
DT
2
1_555
hydrog
WATSON-CRICK
A
DA
5
A
N6
DA
5
1_555
C
DT
20
C
O4
DT
2
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N1
DA
6
1_555
C
DT
19
C
N3
DT
1
1_555
hydrog
WATSON-CRICK
A
DA
6
A
N6
DA
6
1_555
C
DT
19
C
O4
DT
1
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
B
DT
18
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
B
DT
18
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
C
DT
19
C
N3
DT
1
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
C
DT
19
C
O4
DT
1
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N1
DA
8
1_555
B
DT
17
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
A
DA
8
A
N6
DA
8
1_555
B
DT
17
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
DG
16
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
DG
16
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
DG
16
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
15
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
15
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
15
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N3
DC
11
1_555
B
DG
14
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
N4
DC
11
1_555
B
DG
14
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
11
A
O2
DC
11
1_555
B
DG
14
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N1
DG
12
1_555
B
DC
13
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
N2
DG
12
1_555
B
DC
13
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
12
A
O6
DG
12
1_555
B
DC
13
B
N4
DC
1
1_555
DNA
B-DNA, DOUBLE HELIX, NICKED, DNA
1NDN
PDB
1
1NDN
1NDN
PDB
2
1NDN
1NDN
PDB
3
1NDN
1
12
1NDN
1
12
1NDN
A
1
1
12
13
18
1NDN
13
18
1NDN
B
2
1
6
19
24
1NDN
19
24
1NDN
C
3
1
6
19
P 21 21 21