0.054750
0.000000
0.000000
0.000000
0.032584
0.000000
0.000000
0.000000
0.023552
0.00000
0.00000
0.00000
Bancroft, D.
Williams, L.D.
Rich, A.
Egli, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
18.265
30.690
42.460
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
H2 O
18.015
WATER
non-polymer
Na 1
22.990
SODIUM ION
non-polymer
C10 H26 N4
202.340
SPERMINE
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
H
N
74
N
H
N
75
N
NA
N
76
N
N
N
77
N
C
N
78
N
C
N
79
N
C
N
80
N
N
N
81
N
C
N
82
N
C
N
83
N
C
N
84
N
C
N
85
N
N
N
86
N
C
N
87
N
C
N
88
N
C
N
89
N
N
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
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
sing
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
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
sing
N
115
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
33
1073
1086
10.1021/bi00171a005
8110738
The low-temperature crystal structure of the pure-spermine form of Z-DNA reveals binding of a spermine molecule in the minor groove.
1994
US
Biochemistry
BICHAW
0033
0006-2960
30
11388
11402
Structure of the Pure-Spermine Form of Z-DNA (Magnesium Free) at 1 Angstrom Resolution
1991
10.2210/pdb131d/pdb
pdb_0000131d
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
163.00
1
DIFFRACTOMETER
RIGAKU AFC-5R
x-ray
1
1.0
ROTATING ANODE
1810.205
DNA (5'-D(*CP*GP*CP*GP*CP*G)-3')
2
syn
polymer
202.340
SPERMINE
2
syn
non-polymer
22.990
SODIUM ION
2
syn
non-polymer
18.015
water
62
nat
water
no
no
(DC)(DG)(DC)(DG)(DC)(DG)
CGCGCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
1.64
25.16
VAPOR DIFFUSION, SITTING DROP
7.00
pH 7.00, VAPOR DIFFUSION, SITTING DROP
ROOM TEMPERATURE
WATER
1
SPERMINE
1
WATER
2
MPD
2
1.469
1
19
A
1
B
12
2.981
A_DC1:DG12_B
1
-1.935
-0.205
0.074
-0.143
-3.397
1
19
A
2
B
11
2.149
A_DG2:DC11_B
2
2.759
0.260
0.083
-0.155
2.241
1
19
A
3
B
10
1.332
A_DC3:DG10_B
3
6.197
-0.298
0.043
-0.145
-5.393
1
19
A
4
B
9
2.912
A_DG4:DC9_B
4
4.600
0.303
0.020
-0.197
4.753
1
19
A
5
B
8
1.844
A_DC5:DG8_B
5
-6.535
-0.208
0.008
-0.225
-4.004
1
19
A
6
B
7
1.675
A_DG6:DC7_B
6
3.283
0.242
0.094
-0.165
4.626
-10.593
A
A
1
2
13.987
B
B
12
11
3.525
-2.544
0.260
5.420
AA_DC1DG2:DC11DG12_BB
1
1.786
9.815
-10.128
-23.951
5.201
3.178
-54.127
A
A
2
3
6.399
B
B
11
10
3.235
-5.813
0.611
-0.318
AA_DG2DC3:DG10DC11_BB
2
0.929
1.023
-53.830
0.700
0.728
2.407
-8.181
A
A
3
4
-10.489
B
B
10
9
3.612
1.478
-0.384
5.500
AA_DC3DG4:DC9DG10_BB
3
-1.660
-11.781
-7.874
-42.426
-7.043
3.265
-50.558
A
A
4
5
0.756
B
B
9
8
3.267
-0.646
-0.676
-1.071
AA_DG4DC5:DG8DC9_BB
4
0.872
1.021
-50.547
1.299
-0.730
3.637
-7.893
A
A
5
6
0.934
B
B
8
7
3.721
-0.127
0.047
5.475
AA_DC5DG6:DC7DG8_BB
5
2.283
16.824
-7.555
-39.334
8.227
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
1993-10-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.ptnr2_auth_seq_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1993-06-18
REL
SPM
SPERMINE
NA
SODIUM ION
HOH
water
SPM
13
2
SPM
SPM
13
A
NA
15
3
NA
NA
15
A
NA
16
3
NA
NA
16
A
SPM
14
2
SPM
SPM
14
B
HOH
17
4
HOH
HOH
17
A
HOH
18
4
HOH
HOH
18
A
HOH
19
4
HOH
HOH
19
A
HOH
20
4
HOH
HOH
20
A
HOH
21
4
HOH
HOH
21
A
HOH
22
4
HOH
HOH
22
A
HOH
23
4
HOH
HOH
23
A
HOH
24
4
HOH
HOH
24
A
HOH
25
4
HOH
HOH
25
A
HOH
27
4
HOH
HOH
27
A
HOH
28
4
HOH
HOH
28
A
HOH
31
4
HOH
HOH
31
A
HOH
32
4
HOH
HOH
32
A
HOH
35
4
HOH
HOH
35
A
HOH
36
4
HOH
HOH
36
A
HOH
37
4
HOH
HOH
37
A
HOH
39
4
HOH
HOH
39
A
HOH
42
4
HOH
HOH
42
A
HOH
44
4
HOH
HOH
44
A
HOH
45
4
HOH
HOH
45
A
HOH
46
4
HOH
HOH
46
A
HOH
47
4
HOH
HOH
47
A
HOH
55
4
HOH
HOH
55
A
HOH
58
4
HOH
HOH
58
A
HOH
59
4
HOH
HOH
59
A
HOH
60
4
HOH
HOH
60
A
HOH
62
4
HOH
HOH
62
A
HOH
64
4
HOH
HOH
64
A
HOH
65
4
HOH
HOH
65
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
70
4
HOH
HOH
70
A
HOH
71
4
HOH
HOH
71
A
HOH
72
4
HOH
HOH
72
A
HOH
73
4
HOH
HOH
73
A
HOH
74
4
HOH
HOH
74
A
HOH
26
4
HOH
HOH
26
B
HOH
29
4
HOH
HOH
29
B
HOH
30
4
HOH
HOH
30
B
HOH
33
4
HOH
HOH
33
B
HOH
34
4
HOH
HOH
34
B
HOH
38
4
HOH
HOH
38
B
HOH
40
4
HOH
HOH
40
B
HOH
41
4
HOH
HOH
41
B
HOH
43
4
HOH
HOH
43
B
HOH
48
4
HOH
HOH
48
B
HOH
49
4
HOH
HOH
49
B
HOH
50
4
HOH
HOH
50
B
HOH
51
4
HOH
HOH
51
B
HOH
52
4
HOH
HOH
52
B
HOH
53
4
HOH
HOH
53
B
HOH
54
4
HOH
HOH
54
B
HOH
56
4
HOH
HOH
56
B
HOH
57
4
HOH
HOH
57
B
HOH
61
4
HOH
HOH
61
B
HOH
63
4
HOH
HOH
63
B
HOH
75
4
HOH
HOH
75
B
HOH
76
4
HOH
HOH
76
B
HOH
77
4
HOH
HOH
77
B
HOH
78
4
HOH
HOH
78
B
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
C
5
n
5
DC
5
A
G
6
n
6
DG
6
A
C
7
n
1
DC
7
B
G
8
n
2
DG
8
B
C
9
n
3
DC
9
B
G
10
n
4
DG
10
B
C
11
n
5
DC
11
B
G
12
n
6
DG
12
B
author_defined_assembly
2
dimeric
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
DC
5
A
OP1
DC
5
1_555
49.3
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
DC
5
A
OP2
DC
5
1_555
50.7
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
DC
5
A
OP2
DC
5
1_555
49.5
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
84.0
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
70.9
A
DC
5
A
OP2
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
119.3
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
22
G
O
HOH
1_555
162.0
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
22
G
O
HOH
1_555
136.3
A
DC
5
A
OP2
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
22
G
O
HOH
1_555
116.6
A
HOH
18
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
22
G
O
HOH
1_555
113.9
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
105.7
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
147.8
A
DC
5
A
OP2
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
135.8
A
HOH
18
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
88.5
A
HOH
22
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
74.3
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
107.2
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
106.5
A
DC
5
A
OP2
DC
5
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
63.5
A
HOH
18
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
163.1
A
HOH
22
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
55.9
A
HOH
23
G
O
HOH
1_555
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
100.1
A
DC
5
A
OP1
DC
5
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
17
G
O
HOH
1_555
96.4
A
DC
5
A
OP1
DC
5
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
76.6
A
HOH
17
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
66.9
A
DC
5
A
OP1
DC
5
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
20
G
O
HOH
1_555
135.1
A
HOH
17
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
20
G
O
HOH
1_555
123.7
A
HOH
18
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
20
G
O
HOH
1_555
99.7
A
DC
5
A
OP1
DC
5
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
21
G
O
HOH
1_555
55.3
A
HOH
17
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
21
G
O
HOH
1_555
146.1
A
HOH
18
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
21
G
O
HOH
1_555
86.7
A
HOH
20
G
O
HOH
1_555
A
NA
15
D
NA
NA
1_555
A
HOH
21
G
O
HOH
1_555
79.9
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
-3.51
0.40
121.90
118.39
A
A
A
N3
C4
C5
DC
DC
DC
1
1
1
N
1
5.22
0.70
120.20
125.42
A
A
A
C5
C4
N4
DC
DC
DC
1
1
1
N
1
-6.30
0.60
125.10
118.80
A
A
A
C6
N1
C2
DG
DG
DG
2
2
2
N
1
4.17
0.60
123.90
128.07
A
A
A
N1
C2
N3
DG
DG
DG
2
2
2
N
1
6.22
0.50
111.50
117.72
A
A
A
C5
C6
N1
DG
DG
DG
2
2
2
N
1
-4.16
0.60
119.90
115.74
A
A
A
N1
C6
O6
DG
DG
DG
2
2
2
N
1
4.34
0.40
120.30
124.64
A
A
A
C6
N1
C2
DC
DC
DC
3
3
3
N
1
-5.78
0.70
119.20
113.42
A
A
A
N1
C2
N3
DC
DC
DC
3
3
3
N
1
4.34
0.50
119.90
124.24
A
A
A
C2
N3
C4
DC
DC
DC
3
3
3
N
1
5.52
0.60
118.90
124.42
A
A
A
N1
C2
O2
DC
DC
DC
3
3
3
N
1
4.24
0.50
111.50
115.74
A
A
A
C5
C6
N1
DG
DG
DG
4
4
4
N
1
4.46
0.40
110.80
115.26
A
A
A
C4
C5
N7
DG
DG
DG
4
4
4
N
1
-2.91
0.40
105.40
102.49
A
A
A
N9
C4
C5
DG
DG
DG
4
4
4
N
1
-5.65
0.60
128.60
122.95
A
A
A
C5
C6
O6
DG
DG
DG
4
4
4
N
1
-6.09
0.70
108.00
101.91
A
A
A
O4'
C1'
N1
DC
DC
DC
5
5
5
N
1
-4.44
0.70
119.20
114.76
A
A
A
N1
C2
N3
DC
DC
DC
5
5
5
N
1
6.28
0.50
119.90
126.18
A
A
A
C2
N3
C4
DC
DC
DC
5
5
5
N
1
-4.51
0.40
121.90
117.39
A
A
A
N3
C4
C5
DC
DC
DC
5
5
5
N
1
4.50
0.50
121.00
125.50
A
A
A
C5
C6
N1
DC
DC
DC
5
5
5
N
1
-6.75
0.80
109.40
102.65
A
A
A
O5'
C5'
C4'
DG
DG
DG
6
6
6
N
1
-3.96
0.60
125.10
121.14
A
A
A
C6
N1
C2
DG
DG
DG
6
6
6
N
1
3.93
0.60
123.90
127.83
A
A
A
N1
C2
N3
DG
DG
DG
6
6
6
N
1
-3.04
0.50
111.90
108.86
A
A
A
C2
N3
C4
DG
DG
DG
6
6
6
N
1
3.21
0.50
111.50
114.71
A
A
A
C5
C6
N1
DG
DG
DG
6
6
6
N
1
3.82
0.40
110.80
114.62
A
A
A
C4
C5
N7
DG
DG
DG
6
6
6
N
1
-6.20
0.50
104.30
98.10
A
A
A
C5
N7
C8
DG
DG
DG
6
6
6
N
1
5.10
0.50
113.10
118.20
A
A
A
N7
C8
N9
DG
DG
DG
6
6
6
N
1
-5.46
0.70
119.90
114.44
A
A
A
N3
C2
N2
DG
DG
DG
6
6
6
N
1
-6.01
0.80
109.40
103.39
B
B
B
O5'
C5'
C4'
DC
DC
DC
7
7
7
N
1
-5.24
0.80
102.40
97.16
B
B
B
C3'
C2'
C1'
DC
DC
DC
7
7
7
N
1
2.64
0.40
120.30
122.94
B
B
B
C6
N1
C2
DC
DC
DC
7
7
7
N
1
-4.25
0.70
119.20
114.95
B
B
B
N1
C2
N3
DC
DC
DC
7
7
7
N
1
3.55
0.50
119.90
123.45
B
B
B
C2
N3
C4
DC
DC
DC
7
7
7
N
1
3.93
0.60
118.90
122.83
B
B
B
N1
C2
O2
DC
DC
DC
7
7
7
N
1
-3.24
0.50
111.90
108.66
B
B
B
C2
N3
C4
DG
DG
DG
8
8
8
N
1
3.57
0.50
111.50
115.07
B
B
B
C5
C6
N1
DG
DG
DG
8
8
8
N
1
4.10
0.40
110.80
114.90
B
B
B
C4
C5
N7
DG
DG
DG
8
8
8
N
1
-4.58
0.50
104.30
99.72
B
B
B
C5
N7
C8
DG
DG
DG
8
8
8
N
1
3.17
0.50
113.10
116.27
B
B
B
N7
C8
N9
DG
DG
DG
8
8
8
N
1
-3.32
0.40
105.40
102.08
B
B
B
N9
C4
C5
DG
DG
DG
8
8
8
N
1
6.03
0.90
116.20
122.23
B
B
B
N1
C2
N2
DG
DG
DG
8
8
8
N
1
-7.87
0.70
119.90
112.03
B
B
B
N3
C2
N2
DG
DG
DG
8
8
8
N
1
4.48
0.60
119.90
124.38
B
B
B
N1
C6
O6
DG
DG
DG
8
8
8
N
1
-8.24
0.60
128.60
120.36
B
B
B
C5
C6
O6
DG
DG
DG
8
8
8
N
1
8.46
1.20
119.70
128.16
B
B
B
C3'
O3'
P
DG
DG
DC
8
8
9
Y
1
4.83
0.50
119.90
124.73
B
B
B
C2
N3
C4
DC
DC
DC
9
9
9
N
1
-4.44
0.40
121.90
117.46
B
B
B
N3
C4
C5
DC
DC
DC
9
9
9
N
1
-3.06
0.50
111.90
108.84
B
B
B
C2
N3
C4
DG
DG
DG
10
10
10
N
1
3.12
0.50
111.50
114.62
B
B
B
C5
C6
N1
DG
DG
DG
10
10
10
N
1
-3.23
0.50
104.30
101.07
B
B
B
C5
N7
C8
DG
DG
DG
10
10
10
N
1
3.29
0.50
113.10
116.39
B
B
B
N7
C8
N9
DG
DG
DG
10
10
10
N
1
-6.87
0.70
119.90
113.03
B
B
B
N3
C2
N2
DG
DG
DG
10
10
10
N
1
4.73
0.60
118.90
123.63
B
B
B
N1
C2
O2
DC
DC
DC
11
11
11
N
1
-6.28
0.60
125.10
118.82
B
B
B
C6
N1
C2
DG
DG
DG
12
12
12
N
1
6.80
0.50
111.50
118.30
B
B
B
C5
C6
N1
DG
DG
DG
12
12
12
N
1
-5.42
0.60
128.60
123.18
B
B
B
C5
C6
O6
DG
DG
DG
12
12
12
N
1
A
A
C2'
C1'
DC
DC
1
1
0.076
0.010
1.519
1.595
N
1
A
A
N1
C6
DC
DC
1
1
0.051
0.006
1.367
1.418
N
1
A
A
N3
C4
DC
DC
1
1
0.078
0.007
1.335
1.413
N
1
A
A
C5
N7
DG
DG
2
2
-0.037
0.006
1.388
1.351
N
1
A
A
C2
N2
DG
DG
2
2
-0.070
0.010
1.341
1.271
N
1
A
A
C4
N4
DC
DC
3
3
0.073
0.009
1.335
1.408
N
1
A
A
C3'
C2'
DG
DG
4
4
-0.083
0.008
1.516
1.433
N
1
A
A
C6
N1
DG
DG
4
4
-0.081
0.007
1.391
1.310
N
1
A
A
N7
C8
DG
DG
4
4
0.042
0.006
1.305
1.347
N
1
A
A
C2
N2
DG
DG
4
4
-0.090
0.010
1.341
1.251
N
1
A
A
O3'
P
DG
DC
4
5
-0.085
0.012
1.607
1.522
Y
1
A
A
C5'
C4'
DC
DC
5
5
0.058
0.007
1.512
1.570
N
1
A
A
P
OP2
DG
DG
6
6
-0.112
0.017
1.485
1.373
N
1
A
A
C5'
C4'
DG
DG
6
6
0.073
0.007
1.512
1.585
N
1
A
A
C6
N1
DG
DG
6
6
-0.043
0.007
1.391
1.348
N
1
A
A
C8
N9
DG
DG
6
6
-0.074
0.007
1.374
1.300
N
1
B
B
C5'
C4'
DC
DC
7
7
0.049
0.007
1.512
1.561
N
1
B
B
O3'
C3'
DC
DC
7
7
-0.067
0.006
1.419
1.352
N
1
B
B
C5'
C4'
DG
DG
8
8
0.054
0.007
1.512
1.566
N
1
B
B
C4'
C3'
DG
DG
8
8
0.069
0.010
1.529
1.598
N
1
B
B
C3'
C2'
DG
DG
8
8
-0.056
0.008
1.516
1.460
N
1
B
B
C2'
C1'
DG
DG
8
8
-0.063
0.010
1.518
1.455
N
1
B
B
O3'
C3'
DG
DG
8
8
-0.038
0.006
1.419
1.381
N
1
B
B
N1
C2
DG
DG
8
8
-0.065
0.008
1.373
1.308
N
1
B
B
C2
N3
DG
DG
8
8
0.074
0.008
1.323
1.397
N
1
B
B
C6
N1
DG
DG
8
8
-0.071
0.007
1.391
1.320
N
1
B
B
C8
N9
DG
DG
8
8
-0.062
0.007
1.374
1.312
N
1
B
B
C2
N2
DG
DG
8
8
-0.090
0.010
1.341
1.251
N
1
B
B
O3'
P
DG
DC
8
9
-0.075
0.012
1.607
1.532
Y
1
B
B
C5'
C4'
DC
DC
9
9
0.092
0.007
1.512
1.604
N
1
B
B
C2'
C1'
DC
DC
9
9
0.099
0.010
1.519
1.618
N
1
B
B
N1
C2
DC
DC
11
11
-0.063
0.010
1.397
1.334
N
1
B
B
C6
N1
DG
DG
12
12
-0.052
0.007
1.391
1.339
N
1
B
B
C2
N2
DG
DG
12
12
-0.081
0.010
1.341
1.260
N
1
A
B
O
O
HOH
HOH
46
77
2.12
1_555
3_755
1
A
A
O
O
HOH
HOH
69
73
2.13
1_555
3_746
0.1800000
1.000
5.000
9575
1
2.000
TR
isotropic
TR
isotropic
TR
isotropic
1.000
5.000
62
332
30
240
0
0.030
fix
fix
fix
1.000
131D
14081
9691
2.000
1
refinement
PROLSQ
(MODIFIED BY G.J.QUIGLEY)
refinement
MODIFIED
BY G.J.QUIGLEY
THE LOW-TEMPERATURE CRYSTAL STRUCTURE OF THE PURE-SPERMINE FORM OF Z-DNA REVEALS BINDING OF A SPERMINE MOLECULE IN THE MINOR GROOVE
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
2
N
N
4
N
N
4
N
N
metalc
2.844
A
DG
4
A
O3'
DG
4
1_555
A
NA
16
E
NA
NA
1_555
metalc
2.660
A
DC
5
A
OP1
DC
5
1_555
A
NA
15
D
NA
NA
1_555
metalc
2.984
A
DC
5
A
OP1
DC
5
1_555
A
NA
16
E
NA
NA
1_555
metalc
2.804
A
DC
5
A
OP2
DC
5
1_555
A
NA
16
E
NA
NA
1_555
metalc
2.918
A
NA
15
D
NA
NA
1_555
A
HOH
17
G
O
HOH
1_555
metalc
2.757
A
NA
15
D
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
metalc
2.984
A
NA
15
D
NA
NA
1_555
A
HOH
20
G
O
HOH
1_555
metalc
2.902
A
NA
15
D
NA
NA
1_555
A
HOH
21
G
O
HOH
1_555
metalc
2.794
A
NA
16
E
NA
NA
1_555
A
HOH
18
G
O
HOH
1_555
metalc
2.809
A
NA
16
E
NA
NA
1_555
A
HOH
22
G
O
HOH
1_555
metalc
2.607
A
NA
16
E
NA
NA
1_555
A
HOH
23
G
O
HOH
1_555
metalc
2.750
A
NA
16
E
NA
NA
1_555
A
HOH
24
G
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
12
B
N1
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
12
B
O6
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
12
B
N2
DG
6
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
11
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
11
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
11
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N3
DC
3
1_555
B
DG
10
B
N1
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
3
A
N4
DC
3
1_555
B
DG
10
B
O6
DG
4
1_555
hydrog
WATSON-CRICK
A
DC
3
A
O2
DC
3
1_555
B
DG
10
B
N2
DG
4
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N1
DG
4
1_555
B
DC
9
B
N3
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
4
A
N2
DG
4
1_555
B
DC
9
B
O2
DC
3
1_555
hydrog
WATSON-CRICK
A
DG
4
A
O6
DG
4
1_555
B
DC
9
B
N4
DC
3
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
8
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
8
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
8
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
B
DC
7
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
B
DC
7
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
B
DC
7
B
N4
DC
1
1_555
DNA
Z-DNA, DOUBLE HELIX, DNA
131D
PDB
1
131D
1
6
131D
1
6
131D
A
1
1
6
7
12
131D
7
12
131D
B
1
1
6
BINDING SITE FOR RESIDUE SPM A 13
A
SPM
13
Software
16
BINDING SITE FOR RESIDUE SPM B 14
B
SPM
14
Software
15
BINDING SITE FOR RESIDUE NA A 15
A
NA
15
Software
7
BINDING SITE FOR RESIDUE NA A 16
A
NA
16
Software
6
A
DG
2
A
DG
2
16
1_555
A
DG
2
A
DG
2
16
4_556
A
DC
3
A
DC
3
16
1_555
A
DG
4
A
DG
4
16
1_555
A
NA
15
D
NA
16
4_566
A
HOH
17
G
HOH
16
4_566
A
HOH
19
G
HOH
16
4_566
A
HOH
36
G
HOH
16
4_556
A
HOH
37
G
HOH
16
1_555
B
DG
8
B
DG
2
16
1_555
B
DC
9
B
DC
3
16
4_556
B
DC
9
B
DC
3
16
1_555
B
DG
10
B
DG
4
16
4_556
B
DG
10
B
DG
4
16
1_655
B
DC
11
B
DC
5
16
1_655
B
DG
12
B
DG
6
16
1_655
A
DC
1
A
DC
1
15
2_664
A
DG
2
A
DG
2
15
2_664
A
DC
5
A
DC
5
15
1_555
A
DG
6
A
DG
6
15
1_555
A
HOH
18
G
HOH
15
4_466
A
HOH
27
G
HOH
15
1_555
A
HOH
32
G
HOH
15
2_664
A
HOH
65
G
HOH
15
1_555
B
DC
7
B
DC
1
15
1_555
B
DG
8
B
DG
2
15
1_555
B
DC
9
B
DC
3
15
1_555
B
DG
10
B
DG
4
15
1_555
B
HOH
34
H
HOH
15
1_555
B
HOH
51
H
HOH
15
1_555
B
HOH
78
H
HOH
15
1_555
A
DC
5
A
DC
5
7
1_555
A
SPM
13
C
SPM
7
4_466
A
HOH
17
G
HOH
7
1_555
A
HOH
18
G
HOH
7
1_555
A
HOH
19
G
HOH
7
1_555
A
HOH
20
G
HOH
7
1_555
A
HOH
21
G
HOH
7
1_555
A
DG
4
A
DG
4
6
1_555
A
DC
5
A
DC
5
6
1_555
A
HOH
18
G
HOH
6
1_555
A
HOH
22
G
HOH
6
1_555
A
HOH
23
G
HOH
6
1_555
A
HOH
24
G
HOH
6
1_555
19
P 21 21 21