0.029960
0.017297
0.000000
0.000000
0.034595
0.000000
0.000000
0.000000
0.010173
0.00000
0.00000
0.00000
Baikalov, I.
Grzeskowiak, K.
Yanagi, K.
Quintana, J.
Dickerson, R.E.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
33.378
33.378
98.302
C11 H16 N5 O6 P
345.248
n
N6-METHYL-DEOXY-ADENOSINE-5'-MONOPHOSPHATE
DNA linking
Cl -1
35.453
CHLORIDE ION
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
Mg 2
24.305
MAGNESIUM ION
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
Y
18
N
N
Y
19
N
C
Y
20
N
N
Y
21
N
C
N
22
N
N
N
23
N
C
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
H
N
38
N
H
N
39
N
H
N
40
N
CL
N
41
N
O
N
42
N
P
N
43
N
O
N
44
N
O
N
45
N
O
N
46
N
C
N
47
R
C
N
48
N
O
N
49
S
C
N
50
N
O
N
51
N
C
N
52
R
C
Y
53
N
N
Y
54
N
C
Y
55
N
N
Y
56
N
C
Y
57
N
C
N
58
N
N
Y
59
N
N
Y
60
N
C
Y
61
N
N
Y
62
N
C
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
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
O
N
78
N
P
N
79
N
O
N
80
N
O
N
81
N
O
N
82
N
C
N
83
R
C
N
84
N
O
N
85
S
C
N
86
N
O
N
87
N
C
N
88
R
C
N
89
N
N
N
90
N
C
N
91
N
O
N
92
N
N
N
93
N
C
N
94
N
N
N
95
N
C
N
96
N
C
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
P
N
113
N
O
N
114
N
O
N
115
N
O
N
116
N
C
N
117
R
C
N
118
N
O
N
119
S
C
N
120
N
O
N
121
N
C
N
122
R
C
Y
123
N
N
Y
124
N
C
Y
125
N
N
Y
126
N
C
N
127
N
C
N
128
N
O
N
129
N
N
N
130
N
C
N
131
N
N
N
132
N
N
Y
133
N
C
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
O
N
149
N
P
N
150
N
O
N
151
N
O
N
152
N
O
N
153
N
C
N
154
R
C
N
155
N
O
N
156
S
C
N
157
N
O
N
158
N
C
N
159
R
C
N
160
N
N
N
161
N
C
N
162
N
O
N
163
N
N
N
164
N
C
N
165
N
O
N
166
N
C
N
167
N
C
N
168
N
C
N
169
N
H
N
170
N
H
N
171
N
H
N
172
N
H
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
O
N
185
N
H
N
186
N
H
N
187
N
MG
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
Y
31
N
doub
N
32
N
sing
Y
33
N
sing
Y
34
N
doub
N
35
N
sing
Y
36
N
sing
N
37
N
sing
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
doub
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
sing
Y
65
N
sing
Y
66
N
sing
Y
67
N
doub
N
68
N
sing
Y
69
N
sing
Y
70
N
sing
Y
71
N
doub
N
72
N
sing
Y
73
N
doub
N
74
N
sing
N
75
N
sing
Y
76
N
sing
Y
77
N
doub
N
78
N
sing
Y
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
doub
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
doub
N
106
N
sing
N
107
N
doub
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
doub
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
doub
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
Y
138
N
sing
Y
139
N
sing
Y
140
N
doub
N
141
N
sing
Y
142
N
sing
N
143
N
sing
Y
144
N
doub
N
145
N
doub
N
146
N
sing
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
doub
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
sing
N
156
N
doub
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
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
doub
N
180
N
sing
N
181
N
sing
N
182
N
sing
N
183
N
doub
N
184
N
sing
N
185
N
sing
N
186
N
doub
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
N
191
N
sing
N
192
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
231
768
784
10.1006/jmbi.1993.1325
8515450
The crystal structure of the trigonal decamer C-G-A-T-C-G-6meA-T-C-G: a B-DNA helix with 10.6 base-pairs per turn.
1993
US
J.Biol.Chem.
JBCHA3
0071
0021-9258
266
8861
8883
The Structure of B-Helical C-G-A-T-C-G-A-T-C-G and Comparison with C-C-A-A-C-G- T-T-G-G. The Effect of Base Pair Reversals
1991
10.2210/pdb1da3/pdb
pdb_00001da3
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
273.00
1
DIFFRACTOMETER
RIGAKU AFC-5R
x-ray
1
1.0
ROTATING ANODE
RIGAKU
3059.031
DNA (5'-D(*CP*GP*AP*TP*CP*GP*(6MA)P*TP*CP*G)-3')
2
man
polymer
35.453
CHLORIDE ION
1
syn
non-polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
18.015
water
53
nat
water
no
yes
(DC)(DG)(DA)(DT)(DC)(DG)(6MA)(DT)(DC)(DG)
CGATCGATCG
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
2.58
52.39
VAPOR DIFFUSION, SITTING DROP
VAPOR DIFFUSION, SITTING DROP, temperature 277.00K
277.00
WATER
1
MPD
1
MGCL2
1
WATER
2
MPD
2
2.207
1
19
A
1
B
20
1.489
A_DC1:DG20_B
1
-8.025
0.238
-0.349
-0.337
0.332
1
19
A
2
B
19
0.161
A_DG2:DC19_B
2
-9.601
-0.180
-0.068
-0.235
-1.146
1
20
A
3
B
18
1.077
A_DA3:DT18_B
3
-16.200
0.109
0.035
-0.074
1.036
1
20
A
4
B
17
-3.713
A_DT4:6MA17_B
4
-9.334
-0.186
-0.178
-0.095
2.418
1
19
A
5
B
16
-3.126
A_DC5:DG16_B
5
-8.413
0.157
-0.134
-0.089
6.688
1
19
A
6
B
15
-2.795
A_DG6:DC15_B
6
-4.805
-0.242
0.251
-0.594
0.808
1
20
A
7
B
14
-0.082
A_6MA7:DT14_B
7
-11.455
0.263
-0.019
-0.357
3.802
1
20
A
8
B
13
-4.642
A_DT8:DA13_B
8
-9.822
0.259
-0.036
-0.484
5.492
1
19
A
9
B
12
-0.837
A_DC9:DG12_B
9
-10.718
0.469
-0.158
-0.253
6.575
1
19
A
10
B
11
-2.117
A_DG10:DC11_B
10
-5.057
-0.103
0.106
-0.202
3.574
36.448
A
A
1
2
6.197
B
B
20
19
3.457
3.857
-0.779
0.601
AA_DC1DG2:DC19DG20_BB
1
-5.107
8.205
35.901
0.382
0.479
3.150
32.468
A
A
2
3
12.213
B
B
19
18
3.323
6.780
0.715
-0.611
AA_DG2DA3:DT18DC19_BB
2
1.019
-1.835
31.755
-2.283
-1.100
3.117
30.471
A
A
3
4
7.983
B
B
18
17
3.261
4.182
-0.765
-0.644
AA_DA3DT4:6MA17DT18_BB
3
1.065
-2.033
30.171
-2.042
1.664
3.349
36.472
A
A
4
5
0.200
B
B
17
16
3.350
0.125
0.359
-0.149
AA_DT4DC5:DG166MA17_BB
4
-0.116
0.185
36.472
-0.256
-0.590
3.368
33.178
A
A
5
6
2.988
B
B
16
15
3.286
1.704
1.096
0.546
AA_DC5DG6:DC15DG16_BB
5
1.999
-3.505
33.076
0.666
-1.577
3.430
36.263
A
A
6
7
13.656
B
B
15
14
3.489
8.427
-0.696
0.125
AA_DG66MA7:DT14DC15_BB
6
-0.134
0.217
35.302
-1.066
1.099
3.284
32.970
A
A
7
8
-5.863
B
B
14
13
3.275
-3.322
-0.008
-0.253
AA_6MA7DT8:DA13DT14_BB
7
-0.482
0.850
32.803
0.122
-0.068
3.181
35.559
A
A
8
9
11.124
B
B
13
12
3.263
6.744
0.228
-0.182
AA_DT8DC9:DG12DA13_BB
8
3.585
-5.914
34.755
-1.279
0.147
3.350
33.377
A
A
9
10
16.113
B
B
12
11
3.304
9.135
-0.402
0.548
AA_DC9DG10:DC11DG12_BB
9
-2.311
4.076
32.055
-0.619
0.301
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
struct_conn
struct_conn_type
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
1993-04-15
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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1992-11-09
REL
REL
CL
CHLORIDE ION
MG
MAGNESIUM ION
HOH
water
CL
21
2
CL
CL
21
B
MG
22
3
MG
MG
22
B
MG
23
3
MG
MG
23
B
HOH
24
4
HOH
HOH
24
A
HOH
25
4
HOH
HOH
25
A
HOH
26
4
HOH
HOH
26
A
HOH
29
4
HOH
HOH
29
A
HOH
31
4
HOH
HOH
31
A
HOH
34
4
HOH
HOH
34
A
HOH
39
4
HOH
HOH
39
A
HOH
47
4
HOH
HOH
47
A
HOH
50
4
HOH
HOH
50
A
HOH
52
4
HOH
HOH
52
A
HOH
53
4
HOH
HOH
53
A
HOH
56
4
HOH
HOH
56
A
HOH
57
4
HOH
HOH
57
A
HOH
58
4
HOH
HOH
58
A
HOH
62
4
HOH
HOH
62
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
27
4
HOH
HOH
27
B
HOH
28
4
HOH
HOH
28
B
HOH
30
4
HOH
HOH
30
B
HOH
32
4
HOH
HOH
32
B
HOH
33
4
HOH
HOH
33
B
HOH
35
4
HOH
HOH
35
B
HOH
36
4
HOH
HOH
36
B
HOH
37
4
HOH
HOH
37
B
HOH
38
4
HOH
HOH
38
B
HOH
40
4
HOH
HOH
40
B
HOH
41
4
HOH
HOH
41
B
HOH
42
4
HOH
HOH
42
B
HOH
43
4
HOH
HOH
43
B
HOH
44
4
HOH
HOH
44
B
HOH
45
4
HOH
HOH
45
B
HOH
46
4
HOH
HOH
46
B
HOH
48
4
HOH
HOH
48
B
HOH
49
4
HOH
HOH
49
B
HOH
51
4
HOH
HOH
51
B
HOH
54
4
HOH
HOH
54
B
HOH
55
4
HOH
HOH
55
B
HOH
59
4
HOH
HOH
59
B
HOH
60
4
HOH
HOH
60
B
HOH
61
4
HOH
HOH
61
B
HOH
63
4
HOH
HOH
63
B
HOH
65
4
HOH
HOH
65
B
HOH
69
4
HOH
HOH
69
B
HOH
70
4
HOH
HOH
70
B
HOH
71
4
HOH
HOH
71
B
HOH
72
4
HOH
HOH
72
B
HOH
73
4
HOH
HOH
73
B
HOH
74
4
HOH
HOH
74
B
HOH
75
4
HOH
HOH
75
B
HOH
76
4
HOH
HOH
76
B
DC
1
n
1
DC
1
A
DG
2
n
2
DG
2
A
DA
3
n
3
DA
3
A
DT
4
n
4
DT
4
A
DC
5
n
5
DC
5
A
DG
6
n
6
DG
6
A
6MA
7
n
7
6MA
7
A
DT
8
n
8
DT
8
A
DC
9
n
9
DC
9
A
DG
10
n
10
DG
10
A
DC
11
n
1
DC
11
B
DG
12
n
2
DG
12
B
DA
13
n
3
DA
13
B
DT
14
n
4
DT
14
B
DC
15
n
5
DC
15
B
DG
16
n
6
DG
16
B
6MA
17
n
7
6MA
17
B
DT
18
n
8
DT
18
B
DC
19
n
9
DC
19
B
DG
20
n
10
DG
20
B
author_defined_assembly
2
dimeric
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
72
G
O
HOH
1_555
174.8
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
73
G
O
HOH
1_555
87.7
B
HOH
72
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
73
G
O
HOH
1_555
90.3
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
74
G
O
HOH
1_555
95.2
B
HOH
72
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
74
G
O
HOH
1_555
86.9
B
HOH
73
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
74
G
O
HOH
1_555
177.1
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
75
G
O
HOH
1_555
85.6
B
HOH
72
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
75
G
O
HOH
1_555
89.7
B
HOH
73
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
75
G
O
HOH
1_555
92.6
B
HOH
74
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
75
G
O
HOH
1_555
88.1
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
95.0
B
HOH
72
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
89.9
B
HOH
73
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
92.2
B
HOH
74
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
87.1
B
HOH
75
G
O
HOH
1_555
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
175.2
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
69
G
O
HOH
1_555
0.0
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
94.9
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
94.9
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
94.9
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
94.9
B
HOH
70
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
0.0
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
71
G
O
HOH
1_555
89.1
B
HOH
69
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
71
G
O
HOH
1_555
89.1
B
HOH
70
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
71
G
O
HOH
1_555
86.3
B
HOH
70
G
O
HOH
1_555
B
MG
22
D
MG
MG
4_555
B
HOH
71
G
O
HOH
1_555
86.3
A
6MA
7
A
6MA
7
A
B
6MA
17
B
6MA
7
A
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
B
CL
21
C
CL
1
B
MG
22
D
MG
1
A
A
O6
O
DG
HOH
10
66
2.11
1
B
B
N4
O
DC
HOH
11
65
2.18
1
-5.27
0.80
102.40
97.13
A
A
A
C3'
C2'
C1'
DC
DC
DC
1
1
1
N
1
5.36
0.30
108.30
113.66
A
A
A
O4'
C1'
N1
DC
DC
DC
1
1
1
N
1
-4.48
0.70
121.90
117.42
A
A
A
N3
C2
O2
DC
DC
DC
1
1
1
N
1
-10.96
1.60
120.90
109.94
A
A
A
P
O5'
C5'
DG
DG
DG
2
2
2
N
1
13.72
1.20
119.70
133.42
A
A
A
C3'
O3'
P
DG
DG
DA
2
2
3
Y
1
7.70
1.20
110.70
118.40
A
A
A
O5'
P
OP1
DA
DA
DA
3
3
3
N
1
-10.97
1.60
120.90
109.93
A
A
A
P
O5'
C5'
DA
DA
DA
3
3
3
N
1
-6.33
0.80
105.90
99.57
A
A
A
O4'
C1'
C2'
DA
DA
DA
3
3
3
N
1
2.01
0.30
108.30
110.31
A
A
A
O4'
C1'
N9
DA
DA
DA
3
3
3
N
1
-3.82
0.50
113.80
109.98
A
A
A
N7
C8
N9
DA
DA
DA
3
3
3
N
1
2.52
0.40
105.80
108.32
A
A
A
C8
N9
C4
DA
DA
DA
3
3
3
N
1
6.19
0.30
108.30
114.49
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
3.69
0.60
114.60
118.29
A
A
A
N1
C2
N3
DT
DT
DT
4
4
4
N
1
-5.60
0.60
127.20
121.60
A
A
A
C2
N3
C4
DT
DT
DT
4
4
4
N
1
-4.31
0.60
122.30
117.99
A
A
A
N3
C2
O2
DT
DT
DT
4
4
4
N
1
17.23
1.20
119.70
136.93
A
A
A
C3'
O3'
P
DT
DT
DC
4
4
5
Y
1
-8.22
0.80
109.40
101.18
A
A
A
O5'
C5'
C4'
DC
DC
DC
5
5
5
N
1
-4.37
0.40
120.30
115.93
A
A
A
C6
N1
C2
DC
DC
DC
5
5
5
N
1
10.63
0.50
119.90
130.53
A
A
A
C2
N3
C4
DC
DC
DC
5
5
5
N
1
-6.82
0.40
121.90
115.08
A
A
A
N3
C4
C5
DC
DC
DC
5
5
5
N
1
11.14
1.50
119.60
130.74
A
A
A
OP1
P
OP2
DG
DG
DG
6
6
6
N
1
-4.94
0.80
102.40
97.46
A
A
A
C3'
C2'
C1'
DG
DG
DG
6
6
6
N
1
-7.33
0.80
105.90
98.57
A
A
A
O4'
C1'
C2'
DG
DG
DG
6
6
6
N
1
6.28
0.30
108.30
114.58
A
A
A
O4'
C1'
N9
DG
DG
DG
6
6
6
N
1
-6.78
0.60
125.10
118.32
A
A
A
C6
N1
C2
DG
DG
DG
6
6
6
N
1
-4.42
0.50
128.60
124.18
A
A
A
N3
C4
C5
DG
DG
DG
6
6
6
N
1
4.24
0.60
118.80
123.04
A
A
A
C4
C5
C6
DG
DG
DG
6
6
6
N
1
-3.56
0.40
110.80
107.24
A
A
A
C4
C5
N7
DG
DG
DG
6
6
6
N
1
5.63
0.40
105.40
111.03
A
A
A
N9
C4
C5
DG
DG
DG
6
6
6
N
1
-4.21
0.60
119.90
115.69
A
A
A
N1
C6
O6
DG
DG
DG
6
6
6
N
1
-15.29
2.20
105.20
89.91
A
A
A
O3'
P
OP1
DG
6MA
6MA
6
7
7
Y
1
31.29
1.20
119.70
150.99
A
A
A
C3'
O3'
P
6MA
6MA
DT
7
7
8
Y
1
-4.85
0.80
109.40
104.55
A
A
A
O5'
C5'
C4'
DT
DT
DT
8
8
8
N
1
-10.22
1.60
120.90
110.68
A
A
A
P
O5'
C5'
DT
DT
DT
8
8
8
N
1
5.30
0.30
108.30
113.60
A
A
A
O4'
C1'
N1
DT
DT
DT
8
8
8
N
1
-6.95
0.60
127.20
120.25
A
A
A
C2
N3
C4
DT
DT
DT
8
8
8
N
1
-5.83
0.60
122.30
116.47
A
A
A
N3
C2
O2
DT
DT
DT
8
8
8
N
1
-5.36
0.60
119.90
114.54
A
A
A
N3
C4
O4
DT
DT
DT
8
8
8
N
1
8.75
1.20
119.70
128.45
A
A
A
C3'
O3'
P
DT
DT
DC
8
8
9
Y
1
-12.04
1.60
120.90
108.86
A
A
A
P
O5'
C5'
DC
DC
DC
9
9
9
N
1
8.54
0.30
108.30
116.84
A
A
A
O4'
C1'
N1
DC
DC
DC
9
9
9
N
1
5.43
0.50
119.90
125.33
A
A
A
C2
N3
C4
DC
DC
DC
9
9
9
N
1
3.79
0.50
121.00
124.79
A
A
A
C5
C6
N1
DC
DC
DC
9
9
9
N
1
4.90
0.70
121.90
126.80
A
A
A
N3
C2
O2
DC
DC
DC
9
9
9
N
1
-7.91
1.20
119.70
111.79
A
A
A
C3'
O3'
P
DC
DC
DG
9
9
10
Y
1
-11.61
1.60
120.90
109.29
A
A
A
P
O5'
C5'
DG
DG
DG
10
10
10
N
1
-6.38
0.80
102.40
96.02
A
A
A
C3'
C2'
C1'
DG
DG
DG
10
10
10
N
1
4.46
0.30
108.30
112.76
A
A
A
O4'
C1'
N9
DG
DG
DG
10
10
10
N
1
-6.11
0.60
125.10
118.99
A
A
A
C6
N1
C2
DG
DG
DG
10
10
10
N
1
5.26
0.50
111.50
116.76
A
A
A
C5
C6
N1
DG
DG
DG
10
10
10
N
1
4.88
0.40
110.80
115.68
A
A
A
C4
C5
N7
DG
DG
DG
10
10
10
N
1
-7.05
0.90
116.20
109.15
A
A
A
N1
C2
N2
DG
DG
DG
10
10
10
N
1
4.72
0.70
119.90
124.62
A
A
A
N3
C2
N2
DG
DG
DG
10
10
10
N
1
-4.46
0.60
119.90
115.44
A
A
A
N1
C6
O6
DG
DG
DG
10
10
10
N
1
-6.63
0.80
109.40
102.77
B
B
B
O5'
C5'
C4'
DC
DC
DC
11
11
11
N
1
2.45
0.30
108.30
110.75
B
B
B
O4'
C1'
N1
DC
DC
DC
11
11
11
N
1
15.52
1.20
119.70
135.22
B
B
B
C3'
O3'
P
DC
DC
DG
11
11
12
Y
1
8.57
1.10
110.50
119.07
B
B
B
O3'
P
OP2
DC
DG
DG
11
12
12
Y
1
-5.07
0.80
109.40
104.33
B
B
B
O5'
C5'
C4'
DG
DG
DG
12
12
12
N
1
6.48
0.30
108.30
114.78
B
B
B
O4'
C1'
N9
DG
DG
DG
12
12
12
N
1
-4.78
0.50
128.60
123.82
B
B
B
N3
C4
C5
DG
DG
DG
12
12
12
N
1
3.98
0.60
118.80
122.78
B
B
B
C4
C5
C6
DG
DG
DG
12
12
12
N
1
-3.22
0.40
110.80
107.58
B
B
B
C4
C5
N7
DG
DG
DG
12
12
12
N
1
3.66
0.40
105.40
109.06
B
B
B
N9
C4
C5
DG
DG
DG
12
12
12
N
1
25.65
1.20
119.70
145.35
B
B
B
C3'
O3'
P
DG
DG
DA
12
12
13
Y
1
-6.88
0.90
105.70
98.82
B
B
B
O5'
P
OP1
DA
DA
DA
13
13
13
N
1
-7.50
0.80
109.40
101.90
B
B
B
O5'
C5'
C4'
DA
DA
DA
13
13
13
N
1
3.61
0.60
118.60
122.21
B
B
B
C6
N1
C2
DA
DA
DA
13
13
13
N
1
-3.22
0.50
117.70
114.48
B
B
B
C5
C6
N1
DA
DA
DA
13
13
13
N
1
4.39
0.50
103.90
108.29
B
B
B
C5
N7
C8
DA
DA
DA
13
13
13
N
1
-12.24
1.90
104.00
91.76
B
B
B
O3'
P
O5'
DA
DT
DT
13
14
14
Y
1
11.53
1.50
119.60
131.13
B
B
B
OP1
P
OP2
DT
DT
DT
14
14
14
N
1
-7.72
0.80
109.40
101.68
B
B
B
O5'
C5'
C4'
DT
DT
DT
14
14
14
N
1
-13.83
1.60
120.90
107.07
B
B
B
P
O5'
C5'
DT
DT
DT
14
14
14
N
1
4.01
0.30
108.30
112.31
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
1
4.02
0.60
115.20
119.22
B
B
B
N3
C4
C5
DT
DT
DT
14
14
14
N
1
-4.16
0.60
122.30
118.14
B
B
B
N3
C2
O2
DT
DT
DT
14
14
14
N
1
-4.47
0.60
119.90
115.43
B
B
B
N3
C4
O4
DT
DT
DT
14
14
14
N
1
5.53
0.60
119.00
124.53
B
B
B
C4
C5
C7
DT
DT
DT
14
14
14
N
1
-5.38
0.80
109.40
104.02
B
B
B
O5'
C5'
C4'
DC
DC
DC
15
15
15
N
1
-5.02
0.80
102.40
97.38
B
B
B
C3'
C2'
C1'
DC
DC
DC
15
15
15
N
1
9.73
0.30
108.30
118.03
B
B
B
O4'
C1'
N1
DC
DC
DC
15
15
15
N
1
10.11
1.20
119.70
129.81
B
B
B
C3'
O3'
P
DC
DC
DG
15
15
16
Y
1
-5.24
0.80
109.40
104.16
B
B
B
O5'
C5'
C4'
DG
DG
DG
16
16
16
N
1
-12.79
1.60
120.90
108.11
B
B
B
P
O5'
C5'
DG
DG
DG
16
16
16
N
1
-3.10
0.50
128.60
125.50
B
B
B
N3
C4
C5
DG
DG
DG
16
16
16
N
1
4.77
0.60
119.90
124.67
B
B
B
N1
C6
O6
DG
DG
DG
16
16
16
N
1
-6.40
0.60
128.60
122.20
B
B
B
C5
C6
O6
DG
DG
DG
16
16
16
N
1
7.52
1.10
110.50
118.02
B
B
B
O3'
P
OP2
DG
6MA
6MA
16
17
17
Y
1
7.71
1.20
110.70
118.41
B
B
B
O5'
P
OP1
DT
DT
DT
18
18
18
N
1
-6.10
0.80
109.40
103.30
B
B
B
O5'
C5'
C4'
DT
DT
DT
18
18
18
N
1
-3.83
0.40
104.50
100.67
B
B
B
O4'
C4'
C3'
DT
DT
DT
18
18
18
N
1
-8.04
1.00
110.10
102.06
B
B
B
C1'
O4'
C4'
DT
DT
DT
18
18
18
N
1
-4.97
0.60
127.20
122.23
B
B
B
C2
N3
C4
DT
DT
DT
18
18
18
N
1
-6.10
0.60
119.90
113.80
B
B
B
N3
C4
O4
DT
DT
DT
18
18
18
N
1
10.57
1.10
110.50
121.07
B
B
B
O3'
P
OP2
DT
DC
DC
18
19
19
Y
1
-14.70
2.20
105.20
90.50
B
B
B
O3'
P
OP1
DT
DC
DC
18
19
19
Y
1
-7.65
0.80
109.40
101.75
B
B
B
O5'
C5'
C4'
DC
DC
DC
19
19
19
N
1
-3.06
0.40
120.30
117.24
B
B
B
C6
N1
C2
DC
DC
DC
19
19
19
N
1
16.54
1.20
119.70
136.24
B
B
B
C3'
O3'
P
DC
DC
DG
19
19
20
Y
1
-15.75
2.20
105.20
89.45
B
B
B
O3'
P
OP1
DC
DG
DG
19
20
20
Y
1
17.01
1.20
110.70
127.71
B
B
B
O5'
P
OP1
DG
DG
DG
20
20
20
N
1
-17.01
1.60
120.90
103.89
B
B
B
P
O5'
C5'
DG
DG
DG
20
20
20
N
1
-5.18
0.80
105.90
100.72
B
B
B
O4'
C1'
C2'
DG
DG
DG
20
20
20
N
1
6.21
0.30
108.30
114.51
B
B
B
O4'
C1'
N9
DG
DG
DG
20
20
20
N
1
-5.25
0.60
125.10
119.85
B
B
B
C6
N1
C2
DG
DG
DG
20
20
20
N
1
6.41
0.50
111.50
117.91
B
B
B
C5
C6
N1
DG
DG
DG
20
20
20
N
1
2.94
0.40
110.80
113.74
B
B
B
C4
C5
N7
DG
DG
DG
20
20
20
N
1
-8.69
0.60
119.90
111.21
B
B
B
N1
C6
O6
DG
DG
DG
20
20
20
N
1
A
A
O3'
C3'
DG
DG
2
2
-0.039
0.006
1.419
1.380
N
1
A
A
N1
C2
DA
DA
3
3
0.077
0.009
1.339
1.416
N
1
A
A
C4
C5
DA
DA
3
3
-0.044
0.007
1.383
1.339
N
1
A
A
N7
C8
DA
DA
3
3
-0.042
0.007
1.311
1.269
N
1
A
A
O4'
C4'
DT
DT
4
4
-0.079
0.010
1.446
1.367
N
1
A
A
C5'
C4'
DC
DC
5
5
0.047
0.007
1.512
1.559
N
1
A
A
N1
C2
DC
DC
5
5
0.086
0.010
1.397
1.483
N
1
A
A
C2
N3
DC
DC
5
5
-0.053
0.008
1.353
1.300
N
1
A
A
N3
C4
DC
DC
5
5
-0.043
0.007
1.335
1.292
N
1
A
A
C4
C5
DC
DC
5
5
0.057
0.008
1.425
1.482
N
1
A
A
C8
N9
DG
DG
6
6
0.048
0.007
1.374
1.422
N
1
A
A
C3'
C2'
DT
DT
8
8
-0.054
0.008
1.516
1.462
N
1
A
A
O4'
C4'
DT
DT
8
8
-0.082
0.010
1.446
1.364
N
1
A
A
C6
N1
DT
DT
8
8
-0.047
0.007
1.378
1.331
N
1
A
A
O4'
C4'
DC
DC
9
9
-0.085
0.010
1.446
1.361
N
1
B
B
C5'
C4'
DG
DG
12
12
0.084
0.007
1.512
1.596
N
1
B
B
N3
C4
DG
DG
12
12
0.094
0.007
1.350
1.444
N
1
B
B
C4
C5
DG
DG
12
12
-0.045
0.007
1.379
1.334
N
1
B
B
C6
N1
DG
DG
12
12
-0.050
0.007
1.391
1.341
N
1
B
B
C5
N7
DG
DG
12
12
0.100
0.006
1.388
1.488
N
1
B
B
C4
C5
DA
DA
13
13
0.047
0.007
1.383
1.430
N
1
B
B
C6
N1
DA
DA
13
13
0.084
0.007
1.351
1.435
N
1
B
B
C5
N7
DA
DA
13
13
-0.051
0.006
1.388
1.337
N
1
B
B
P
OP1
DC
DC
15
15
0.107
0.017
1.485
1.592
N
1
B
B
O4'
C4'
DC
DC
15
15
-0.096
0.010
1.446
1.350
N
1
B
B
C4
N4
DC
DC
15
15
0.062
0.009
1.335
1.397
N
1
B
B
C2
N3
DC
DC
15
15
0.053
0.008
1.353
1.406
N
1
B
B
O3'
P
DC
DG
15
16
-0.092
0.012
1.607
1.515
Y
1
B
B
O4'
C1'
DG
DG
16
16
0.068
0.011
1.420
1.488
N
1
B
B
N1
C2
DG
DG
16
16
-0.049
0.008
1.373
1.324
N
1
B
B
C2
N3
DG
DG
16
16
0.069
0.008
1.323
1.392
N
1
B
B
C4
C5
DG
DG
16
16
0.050
0.007
1.379
1.429
N
1
B
B
C5
C6
DG
DG
16
16
0.061
0.010
1.419
1.480
N
1
B
B
C6
N1
DG
DG
16
16
-0.067
0.007
1.391
1.324
N
1
B
B
N9
C4
DG
DG
16
16
-0.078
0.008
1.375
1.297
N
1
B
B
C6
N1
DT
DT
18
18
-0.079
0.007
1.378
1.299
N
1
B
B
C5'
C4'
DC
DC
19
19
0.063
0.007
1.512
1.575
N
1
B
B
C4
N4
DC
DC
19
19
0.075
0.009
1.335
1.410
N
1
B
B
N3
C4
DC
DC
19
19
-0.045
0.007
1.335
1.290
N
1
B
B
O4'
C4'
DG
DG
20
20
-0.067
0.010
1.446
1.379
N
1
B
B
N3
C4
DG
DG
20
20
0.047
0.007
1.350
1.397
N
1
B
B
C4
C5
DG
DG
20
20
-0.075
0.007
1.379
1.304
N
0.172
2.000
8.000
2282
1
2.000
TR
isotropic
TR
isotropic
2.000
8.000
53
462
3
406
0
0.017
fix
fix
2.000
8.000
1DA3
2282
2.000
1
refinement
NUCLSQ
THE CRYSTAL STRUCTURE OF THE TRIGONAL DECAMER C-G-A-T-C-G-6MEA-T-C-G: A B-DNA HELIX WITH 10.6 BASE-PAIRS PER TURN
1
N
N
1
N
N
2
N
N
3
N
N
3
N
N
4
N
N
4
N
N
covale
1.621
both
A
DG
6
A
O3'
DG
6
1_555
A
6MA
7
A
P
6MA
7
1_555
covale
1.655
both
A
6MA
7
A
O3'
6MA
7
1_555
A
DT
8
A
P
DT
8
1_555
covale
1.570
both
B
DG
16
B
O3'
DG
6
1_555
B
6MA
17
B
P
6MA
7
1_555
covale
1.597
both
B
6MA
17
B
O3'
6MA
7
1_555
B
DT
18
B
P
DT
8
1_555
metalc
2.374
B
DG
16
B
OP1
DG
6
1_555
B
MG
23
E
MG
MG
1_555
metalc
1.992
B
MG
22
D
MG
MG
4_555
B
HOH
69
G
O
HOH
1_555
metalc
1.992
B
MG
22
D
MG
MG
1_555
B
HOH
69
G
O
HOH
1_555
metalc
2.071
B
MG
22
D
MG
MG
4_555
B
HOH
70
G
O
HOH
1_555
metalc
2.071
B
MG
22
D
MG
MG
1_555
B
HOH
70
G
O
HOH
1_555
metalc
2.087
B
MG
22
D
MG
MG
1_555
B
HOH
71
G
O
HOH
1_555
metalc
2.090
B
MG
23
E
MG
MG
1_555
B
HOH
72
G
O
HOH
1_555
metalc
1.932
B
MG
23
E
MG
MG
1_555
B
HOH
73
G
O
HOH
1_555
metalc
2.029
B
MG
23
E
MG
MG
1_555
B
HOH
74
G
O
HOH
1_555
metalc
2.050
B
MG
23
E
MG
MG
1_555
B
HOH
75
G
O
HOH
1_555
metalc
2.010
B
MG
23
E
MG
MG
1_555
B
HOH
76
G
O
HOH
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N3
DC
1
1_555
B
DG
20
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
N4
DC
1
1_555
B
DG
20
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
DC
1
A
O2
DC
1
1_555
B
DG
20
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N1
DG
2
1_555
B
DC
19
B
N3
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
2
A
N2
DG
2
1_555
B
DC
19
B
O2
DC
9
1_555
hydrog
WATSON-CRICK
A
DG
2
A
O6
DG
2
1_555
B
DC
19
B
N4
DC
9
1_555
hydrog
WATSON-CRICK
A
DA
3
A
N1
DA
3
1_555
B
DT
18
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
DA
3
A
N6
DA
3
1_555
B
DT
18
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
B
6MA
17
B
N1
6MA
7
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
B
6MA
17
B
N6
6MA
7
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N3
DC
5
1_555
B
DG
16
B
N1
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
5
A
N4
DC
5
1_555
B
DG
16
B
O6
DG
6
1_555
hydrog
WATSON-CRICK
A
DC
5
A
O2
DC
5
1_555
B
DG
16
B
N2
DG
6
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N1
DG
6
1_555
B
DC
15
B
N3
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
6
A
N2
DG
6
1_555
B
DC
15
B
O2
DC
5
1_555
hydrog
WATSON-CRICK
A
DG
6
A
O6
DG
6
1_555
B
DC
15
B
N4
DC
5
1_555
hydrog
WATSON-CRICK
A
6MA
7
A
N1
6MA
7
1_555
B
DT
14
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
6MA
7
A
N6
6MA
7
1_555
B
DT
14
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DT
8
A
N3
DT
8
1_555
B
DA
13
B
N1
DA
3
1_555
hydrog
WATSON-CRICK
A
DT
8
A
O4
DT
8
1_555
B
DA
13
B
N6
DA
3
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N3
DC
9
1_555
B
DG
12
B
N1
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
9
A
N4
DC
9
1_555
B
DG
12
B
O6
DG
2
1_555
hydrog
WATSON-CRICK
A
DC
9
A
O2
DC
9
1_555
B
DG
12
B
N2
DG
2
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N1
DG
10
1_555
B
DC
11
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
N2
DG
10
1_555
B
DC
11
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
DG
10
A
O6
DG
10
1_555
B
DC
11
B
N4
DC
1
1_555
DNA
B-DNA, DOUBLE HELIX, MODIFIED, DNA
1DA3
PDB
1
1DA3
1
10
1DA3
1
10
1DA3
A
1
1
10
11
20
1DA3
11
20
1DA3
B
1
1
10
BINDING SITE FOR RESIDUE CL B 21
B
CL
21
Software
6
BINDING SITE FOR RESIDUE MG B 22
B
MG
22
Software
6
BINDING SITE FOR RESIDUE MG B 23
B
MG
23
Software
6
B
DT
18
B
DT
8
6
4_555
B
DT
18
B
DT
8
6
1_555
B
HOH
44
G
HOH
6
1_555
B
HOH
44
G
HOH
6
4_555
B
HOH
51
G
HOH
6
4_555
B
HOH
51
G
HOH
6
1_555
B
HOH
69
G
HOH
6
4_555
B
HOH
69
G
HOH
6
1_555
B
HOH
70
G
HOH
6
4_555
B
HOH
70
G
HOH
6
1_555
B
HOH
71
G
HOH
6
1_555
B
HOH
71
G
HOH
6
4_555
B
DG
16
B
DG
6
6
1_555
B
HOH
72
G
HOH
6
1_555
B
HOH
73
G
HOH
6
1_555
B
HOH
74
G
HOH
6
1_555
B
HOH
75
G
HOH
6
1_555
B
HOH
76
G
HOH
6
1_555
154
P 32 2 1