0.039604
0.000000
0.000000
0.000000
0.021868
0.000000
0.000000
0.000000
0.021820
0.00000
0.00000
0.00000
Egli, M.
Usman, N.
Rich, A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
25.250
45.730
45.830
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
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
R
C
N
12
N
O
N
13
R
C
Y
14
N
N
Y
15
N
C
Y
16
N
N
Y
17
N
C
Y
18
N
C
N
19
N
N
Y
20
N
N
Y
21
N
C
Y
22
N
N
Y
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
O
N
39
N
P
N
40
N
O
N
41
N
O
N
42
N
O
N
43
N
C
N
44
R
C
N
45
N
O
N
46
S
C
N
47
N
O
N
48
N
C
N
49
R
C
Y
50
N
N
Y
51
N
C
Y
52
N
N
Y
53
N
C
Y
54
N
C
N
55
N
N
Y
56
N
N
Y
57
N
C
Y
58
N
N
Y
59
N
C
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
H
N
73
N
H
N
74
N
O
N
75
N
P
N
76
N
O
N
77
N
O
N
78
N
O
N
79
N
C
N
80
R
C
N
81
N
O
N
82
S
C
N
83
N
O
N
84
N
C
N
85
R
C
N
86
N
N
N
87
N
C
N
88
N
O
N
89
N
N
N
90
N
C
N
91
N
N
N
92
N
C
N
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
Y
120
N
N
Y
121
N
C
Y
122
N
N
Y
123
N
C
N
124
N
C
N
125
N
O
N
126
N
N
N
127
N
C
N
128
N
N
N
129
N
N
Y
130
N
C
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
O
N
146
N
P
N
147
N
O
N
148
N
O
N
149
N
O
N
150
N
C
N
151
R
C
N
152
N
O
N
153
S
C
N
154
N
O
N
155
N
C
N
156
R
C
N
157
N
N
N
158
N
C
N
159
N
O
N
160
N
N
N
161
N
C
N
162
N
O
N
163
N
C
N
164
N
C
N
165
N
C
N
166
N
H
N
167
N
H
N
168
N
H
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
O
N
182
N
H
N
183
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
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
Y
29
N
sing
Y
30
N
sing
Y
31
N
doub
N
32
N
sing
Y
33
N
doub
N
34
N
sing
N
35
N
sing
Y
36
N
sing
Y
37
N
doub
N
38
N
sing
Y
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
doub
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
Y
63
N
sing
Y
64
N
sing
Y
65
N
doub
N
66
N
sing
Y
67
N
sing
Y
68
N
sing
Y
69
N
doub
N
70
N
sing
Y
71
N
doub
N
72
N
sing
N
73
N
sing
Y
74
N
sing
Y
75
N
doub
N
76
N
sing
Y
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
doub
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
doub
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
doub
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
Y
136
N
sing
Y
137
N
sing
Y
138
N
doub
N
139
N
sing
Y
140
N
sing
N
141
N
sing
Y
142
N
doub
N
143
N
doub
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
doub
N
155
N
sing
N
156
N
sing
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
doub
N
178
N
sing
N
179
N
sing
N
180
N
sing
N
181
N
doub
N
182
N
sing
N
183
N
sing
N
184
N
doub
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
sing
N
190
N
sing
US
Biochemistry
BICHAW
0033
0006-2960
32
3221
3237
10.1021/bi00064a004
7681688
Conformational influence of the ribose 2'-hydroxyl group: crystal structures of DNA-RNA chimeric duplexes.
1993
UK
Nucleic Acids Res.
NARHAD
0389
0305-1048
20
6695
6699
Large Scale Chemical Synthesis, Purification and Crystallization of RNA-DNA Chimeras
1992
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
89
534
538
Crystal Structure of an Okazaki Fragment at 2 Angstroms Resolution
1992
10.2210/pdb1d88/pdb
pdb_00001d88
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
3061.004
DNA/RNA (5'-D(*GP*CP*GP*TP*)-R(*AP*)-D(*TP*AP*CP*GP*C)-3')
2
syn
polymer
18.015
water
94
nat
water
no
no
(DG)(DC)(DG)(DT)A(DT)(DA)(DC)(DG)(DC)
GCGTATACGC
A,B
polydeoxyribonucleotide/polyribonucleotide hybrid
n
n
n
n
n
n
n
n
n
n
2.16
43.08
VAPOR DIFFUSION, SITTING DROP
6.00
pH 6.00, VAPOR DIFFUSION, SITTING DROP, temperature 291.00K
291.00
WATER
1
NA CACODYLATE
1
MGCL2
1
SPERMINE
1
WATER
2
MPD
2
3.102
1
19
A
1
B
20
1.757
A_DG1:DC20_B
1
-9.175
1.062
0.522
-0.262
12.606
1
19
A
2
B
19
-1.642
A_DC2:DG19_B
2
-27.719
0.140
0.200
-0.246
-0.705
1
19
A
3
B
18
1.684
A_DG3:DC18_B
3
-14.053
0.110
0.262
-0.129
3.430
1
20
A
4
B
17
-2.949
A_DT4:DA17_B
4
-20.423
-0.079
-0.596
-0.129
-8.314
1
20
A
5
B
16
0.894
A_A5:DT16_B
5
-22.622
-0.517
0.284
-0.176
8.556
1
20
A
6
B
15
3.603
A_DT6:A15_B
6
-10.917
-0.866
0.041
-0.221
8.861
1
20
A
7
B
14
12.357
A_DA7:DT14_B
7
-14.895
0.305
-0.005
-0.095
11.771
1
19
A
8
B
13
2.399
A_DC8:DG13_B
8
-15.292
0.635
0.232
-0.346
-10.520
1
19
A
9
B
12
1.175
A_DG9:DC12_B
9
-4.067
-0.165
-0.408
-0.045
7.168
1
19
A
10
B
11
0.076
A_DC10:DG11_B
10
-8.158
0.294
-0.660
-0.222
3.324
31.069
A
A
1
2
-2.833
B
B
20
19
3.318
-1.510
-0.203
-1.837
AA_DG1DC2:DG19DC20_BB
1
5.182
-9.721
30.608
-3.134
1.395
2.728
31.070
A
A
2
3
17.147
B
B
19
18
3.586
9.050
0.256
-2.404
AA_DC2DG3:DC18DG19_BB
2
-2.130
4.036
29.679
-6.203
-0.882
2.650
34.871
A
A
3
4
17.035
B
B
18
17
3.270
10.050
-1.528
-1.053
AA_DG3DT4:DA17DC18_BB
3
4.064
-6.889
33.193
-3.173
3.122
2.149
27.747
A
A
4
5
34.529
B
B
17
16
3.730
15.621
1.441
-1.649
AA_DT4A5:DT16DA17_BB
4
-0.688
1.522
22.993
-7.158
-3.170
2.585
29.832
A
A
5
6
11.711
B
B
16
15
2.866
5.989
0.682
-1.211
AA_A5DT6:A15DT16_BB
5
0.564
-1.102
29.233
-3.402
-1.227
2.397
39.782
A
A
6
7
25.219
B
B
15
14
3.184
16.658
0.397
-1.319
AA_DT6DA7:DT14A15_BB
6
2.751
-4.165
36.154
-3.674
-0.296
3.166
31.353
A
A
7
8
4.696
B
B
14
13
3.258
2.535
0.209
-1.109
AA_DA7DC8:DG13DT14_BB
7
1.356
-2.513
31.224
-2.522
-0.136
2.437
35.251
A
A
8
9
30.434
B
B
13
12
3.694
17.617
-0.425
-1.495
AA_DC8DG9:DC12DG13_BB
8
3.369
-5.821
30.472
-5.113
1.208
2.757
31.989
A
A
9
10
11.884
B
B
12
11
3.225
6.496
-0.111
-1.918
AA_DG9DC10:DG11DC12_BB
9
2.983
-5.457
31.200
-4.568
0.700
chem_comp_atom
chem_comp_bond
database_2
struct_keywords
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Structure summary
1
0
1993-07-15
1
1
2008-05-22
1
2
2011-07-13
1
3
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_keywords.text
BNL
Y
NDB
1992-08-28
REL
HOH
water
HOH
22
2
HOH
HOH
22
A
HOH
24
2
HOH
HOH
24
A
HOH
25
2
HOH
HOH
25
A
HOH
27
2
HOH
HOH
27
A
HOH
28
2
HOH
HOH
28
A
HOH
30
2
HOH
HOH
30
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
37
2
HOH
HOH
37
A
HOH
38
2
HOH
HOH
38
A
HOH
39
2
HOH
HOH
39
A
HOH
40
2
HOH
HOH
40
A
HOH
41
2
HOH
HOH
41
A
HOH
42
2
HOH
HOH
42
A
HOH
43
2
HOH
HOH
43
A
HOH
44
2
HOH
HOH
44
A
HOH
45
2
HOH
HOH
45
A
HOH
46
2
HOH
HOH
46
A
HOH
47
2
HOH
HOH
47
A
HOH
50
2
HOH
HOH
50
A
HOH
51
2
HOH
HOH
51
A
HOH
53
2
HOH
HOH
53
A
HOH
55
2
HOH
HOH
55
A
HOH
59
2
HOH
HOH
59
A
HOH
67
2
HOH
HOH
67
A
HOH
69
2
HOH
HOH
69
A
HOH
70
2
HOH
HOH
70
A
HOH
71
2
HOH
HOH
71
A
HOH
74
2
HOH
HOH
74
A
HOH
75
2
HOH
HOH
75
A
HOH
76
2
HOH
HOH
76
A
HOH
77
2
HOH
HOH
77
A
HOH
79
2
HOH
HOH
79
A
HOH
81
2
HOH
HOH
81
A
HOH
82
2
HOH
HOH
82
A
HOH
83
2
HOH
HOH
83
A
HOH
85
2
HOH
HOH
85
A
HOH
88
2
HOH
HOH
88
A
HOH
91
2
HOH
HOH
91
A
HOH
93
2
HOH
HOH
93
A
HOH
95
2
HOH
HOH
95
A
HOH
96
2
HOH
HOH
96
A
HOH
98
2
HOH
HOH
98
A
HOH
99
2
HOH
HOH
99
A
HOH
100
2
HOH
HOH
100
A
HOH
102
2
HOH
HOH
102
A
HOH
108
2
HOH
HOH
108
A
HOH
111
2
HOH
HOH
111
A
HOH
112
2
HOH
HOH
112
A
HOH
113
2
HOH
HOH
113
A
HOH
114
2
HOH
HOH
114
A
HOH
21
2
HOH
HOH
21
B
HOH
23
2
HOH
HOH
23
B
HOH
26
2
HOH
HOH
26
B
HOH
29
2
HOH
HOH
29
B
HOH
31
2
HOH
HOH
31
B
HOH
36
2
HOH
HOH
36
B
HOH
48
2
HOH
HOH
48
B
HOH
49
2
HOH
HOH
49
B
HOH
52
2
HOH
HOH
52
B
HOH
54
2
HOH
HOH
54
B
HOH
56
2
HOH
HOH
56
B
HOH
57
2
HOH
HOH
57
B
HOH
58
2
HOH
HOH
58
B
HOH
60
2
HOH
HOH
60
B
HOH
61
2
HOH
HOH
61
B
HOH
62
2
HOH
HOH
62
B
HOH
63
2
HOH
HOH
63
B
HOH
64
2
HOH
HOH
64
B
HOH
65
2
HOH
HOH
65
B
HOH
66
2
HOH
HOH
66
B
HOH
68
2
HOH
HOH
68
B
HOH
72
2
HOH
HOH
72
B
HOH
73
2
HOH
HOH
73
B
HOH
78
2
HOH
HOH
78
B
HOH
80
2
HOH
HOH
80
B
HOH
84
2
HOH
HOH
84
B
HOH
86
2
HOH
HOH
86
B
HOH
87
2
HOH
HOH
87
B
HOH
89
2
HOH
HOH
89
B
HOH
90
2
HOH
HOH
90
B
HOH
92
2
HOH
HOH
92
B
HOH
94
2
HOH
HOH
94
B
HOH
97
2
HOH
HOH
97
B
HOH
101
2
HOH
HOH
101
B
HOH
103
2
HOH
HOH
103
B
HOH
104
2
HOH
HOH
104
B
HOH
105
2
HOH
HOH
105
B
HOH
106
2
HOH
HOH
106
B
HOH
107
2
HOH
HOH
107
B
HOH
109
2
HOH
HOH
109
B
HOH
110
2
HOH
HOH
110
B
G
1
n
1
DG
1
A
C
2
n
2
DC
2
A
G
3
n
3
DG
3
A
T
4
n
4
DT
4
A
A
5
n
5
A
5
A
T
6
n
6
DT
6
A
A
7
n
7
DA
7
A
C
8
n
8
DC
8
A
G
9
n
9
DG
9
A
C
10
n
10
DC
10
A
G
11
n
1
DG
11
B
C
12
n
2
DC
12
B
G
13
n
3
DG
13
B
T
14
n
4
DT
14
B
A
15
n
5
A
15
B
T
16
n
6
DT
16
B
A
17
n
7
DA
17
B
C
18
n
8
DC
18
B
G
19
n
9
DG
19
B
C
20
n
10
DC
20
B
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
1
B
B
O2
O
DC
HOH
20
109
2.15
1
4.38
0.30
108.30
112.68
A
A
A
O4'
C1'
N9
DG
DG
DG
1
1
1
N
1
-6.33
0.60
125.10
118.77
A
A
A
C6
N1
C2
DG
DG
DG
1
1
1
N
1
5.06
0.60
123.90
128.96
A
A
A
N1
C2
N3
DG
DG
DG
1
1
1
N
1
6.05
0.50
111.50
117.55
A
A
A
C5
C6
N1
DG
DG
DG
1
1
1
N
1
8.65
0.90
116.20
124.85
A
A
A
N1
C2
N2
DG
DG
DG
1
1
1
N
1
-13.72
0.70
119.90
106.18
A
A
A
N3
C2
N2
DG
DG
DG
1
1
1
N
1
-4.55
0.60
128.60
124.05
A
A
A
C5
C6
O6
DG
DG
DG
1
1
1
N
1
-5.94
0.40
104.50
98.56
A
A
A
O4'
C4'
C3'
DC
DC
DC
2
2
2
N
1
-5.03
0.70
102.20
97.17
A
A
A
C4'
C3'
C2'
DC
DC
DC
2
2
2
N
1
5.17
0.50
119.90
125.07
A
A
A
C2
N3
C4
DC
DC
DC
2
2
2
N
1
-5.65
0.40
121.90
116.25
A
A
A
N3
C4
C5
DC
DC
DC
2
2
2
N
1
6.62
0.60
118.90
125.52
A
A
A
N1
C2
O2
DC
DC
DC
2
2
2
N
1
4.50
0.70
120.20
124.70
A
A
A
C5
C4
N4
DC
DC
DC
2
2
2
N
1
-6.98
0.90
105.70
98.72
A
A
A
O5'
P
OP1
DG
DG
DG
3
3
3
N
1
-3.03
0.40
104.50
101.47
A
A
A
O4'
C4'
C3'
DG
DG
DG
3
3
3
N
1
9.68
1.10
109.80
119.48
A
A
A
C5'
C4'
O4'
DG
DG
DG
3
3
3
N
1
5.34
0.70
110.30
115.64
A
A
A
C1'
O4'
C4'
DG
DG
DG
3
3
3
N
1
8.27
0.30
108.30
116.57
A
A
A
O4'
C1'
N9
DG
DG
DG
3
3
3
N
1
-5.39
0.60
125.10
119.71
A
A
A
C6
N1
C2
DG
DG
DG
3
3
3
N
1
4.21
0.60
123.90
128.11
A
A
A
N1
C2
N3
DG
DG
DG
3
3
3
N
1
6.39
0.50
111.50
117.89
A
A
A
C5
C6
N1
DG
DG
DG
3
3
3
N
1
6.23
0.90
116.20
122.43
A
A
A
N1
C2
N2
DG
DG
DG
3
3
3
N
1
-10.44
0.70
119.90
109.46
A
A
A
N3
C2
N2
DG
DG
DG
3
3
3
N
1
-6.60
0.60
128.60
122.00
A
A
A
C5
C6
O6
DG
DG
DG
3
3
3
N
1
-6.35
0.90
105.70
99.35
A
A
A
O5'
P
OP2
DT
DT
DT
4
4
4
N
1
-17.66
1.60
120.90
103.24
A
A
A
P
O5'
C5'
DT
DT
DT
4
4
4
N
1
-7.64
0.70
108.00
100.36
A
A
A
O4'
C1'
N1
DT
DT
DT
4
4
4
N
1
5.17
0.60
119.00
124.17
A
A
A
C4
C5
C7
DT
DT
DT
4
4
4
N
1
-5.61
0.60
122.90
117.29
A
A
A
C6
C5
C7
DT
DT
DT
4
4
4
N
1
-6.56
0.90
105.70
99.14
A
A
A
O5'
P
OP1
A
A
A
5
5
5
N
1
14.82
1.90
111.70
126.52
A
A
A
O5'
C5'
C4'
A
A
A
5
5
5
N
1
-10.76
1.60
120.90
110.14
A
A
A
P
O5'
C5'
A
A
A
5
5
5
N
1
-7.83
1.10
112.00
104.17
A
A
A
N9
C1'
C2'
A
A
A
5
5
5
N
1
10.52
1.20
119.70
130.22
A
A
A
C3'
O3'
P
DT
DT
DA
6
6
7
Y
1
-7.91
0.90
105.70
97.79
A
A
A
O5'
P
OP1
DA
DA
DA
7
7
7
N
1
-9.86
1.60
120.90
111.04
A
A
A
P
O5'
C5'
DA
DA
DA
7
7
7
N
1
-3.36
0.40
104.50
101.14
A
A
A
O4'
C4'
C3'
DA
DA
DA
7
7
7
N
1
-4.84
0.70
102.20
97.36
A
A
A
C4'
C3'
C2'
DA
DA
DA
7
7
7
N
1
-4.81
0.80
102.40
97.59
A
A
A
C3'
C2'
C1'
DA
DA
DA
7
7
7
N
1
1.91
0.30
108.30
110.21
A
A
A
O4'
C1'
N9
DA
DA
DA
7
7
7
N
1
17.50
1.20
119.70
137.20
A
A
A
C3'
O3'
P
DA
DA
DC
7
7
8
Y
1
-6.92
0.90
105.70
98.78
A
A
A
O5'
P
OP1
DC
DC
DC
8
8
8
N
1
-5.31
0.40
104.50
99.19
A
A
A
O4'
C4'
C3'
DC
DC
DC
8
8
8
N
1
3.85
0.30
108.30
112.15
A
A
A
O4'
C1'
N1
DC
DC
DC
8
8
8
N
1
5.17
0.50
119.90
125.07
A
A
A
C2
N3
C4
DC
DC
DC
8
8
8
N
1
-4.99
0.40
121.90
116.91
A
A
A
N3
C4
C5
DC
DC
DC
8
8
8
N
1
5.74
0.60
118.90
124.64
A
A
A
N1
C2
O2
DC
DC
DC
8
8
8
N
1
6.16
0.70
120.20
126.36
A
A
A
C5
C4
N4
DC
DC
DC
8
8
8
N
1
-6.55
0.90
105.70
99.15
A
A
A
O5'
P
OP1
DG
DG
DG
9
9
9
N
1
-7.07
0.60
125.10
118.03
A
A
A
C6
N1
C2
DG
DG
DG
9
9
9
N
1
6.39
0.60
123.90
130.29
A
A
A
N1
C2
N3
DG
DG
DG
9
9
9
N
1
-3.29
0.50
111.90
108.61
A
A
A
C2
N3
C4
DG
DG
DG
9
9
9
N
1
6.07
0.50
111.50
117.57
A
A
A
C5
C6
N1
DG
DG
DG
9
9
9
N
1
-10.11
0.70
119.90
109.79
A
A
A
N3
C2
N2
DG
DG
DG
9
9
9
N
1
-5.83
0.60
128.60
122.77
A
A
A
C5
C6
O6
DG
DG
DG
9
9
9
N
1
-6.81
0.90
105.70
98.89
A
A
A
O5'
P
OP1
DC
DC
DC
10
10
10
N
1
4.22
0.50
119.90
124.12
A
A
A
C2
N3
C4
DC
DC
DC
10
10
10
N
1
-3.85
0.40
121.90
118.05
A
A
A
N3
C4
C5
DC
DC
DC
10
10
10
N
1
6.52
0.60
118.90
125.42
A
A
A
N1
C2
O2
DC
DC
DC
10
10
10
N
1
-5.65
0.60
125.10
119.45
B
B
B
C6
N1
C2
DG
DG
DG
11
11
11
N
1
5.32
0.60
123.90
129.22
B
B
B
N1
C2
N3
DG
DG
DG
11
11
11
N
1
5.76
0.50
111.50
117.26
B
B
B
C5
C6
N1
DG
DG
DG
11
11
11
N
1
-10.06
0.70
119.90
109.84
B
B
B
N3
C2
N2
DG
DG
DG
11
11
11
N
1
-5.06
0.60
128.60
123.54
B
B
B
C5
C6
O6
DG
DG
DG
11
11
11
N
1
-5.83
0.90
105.70
99.87
B
B
B
O5'
P
OP1
DC
DC
DC
12
12
12
N
1
3.15
0.30
108.30
111.45
B
B
B
O4'
C1'
N1
DC
DC
DC
12
12
12
N
1
4.23
0.50
119.90
124.13
B
B
B
C2
N3
C4
DC
DC
DC
12
12
12
N
1
-5.36
0.40
121.90
116.54
B
B
B
N3
C4
C5
DC
DC
DC
12
12
12
N
1
3.59
0.50
121.00
124.59
B
B
B
C5
C6
N1
DC
DC
DC
12
12
12
N
1
4.35
0.60
118.90
123.25
B
B
B
N1
C2
O2
DC
DC
DC
12
12
12
N
1
5.29
0.70
120.20
125.49
B
B
B
C5
C4
N4
DC
DC
DC
12
12
12
N
1
-9.29
0.90
105.70
96.41
B
B
B
O5'
P
OP1
DG
DG
DG
13
13
13
N
1
-13.09
1.60
120.90
107.81
B
B
B
P
O5'
C5'
DG
DG
DG
13
13
13
N
1
-6.87
0.40
104.50
97.63
B
B
B
O4'
C4'
C3'
DG
DG
DG
13
13
13
N
1
7.12
0.30
108.30
115.42
B
B
B
O4'
C1'
N9
DG
DG
DG
13
13
13
N
1
-4.80
0.60
125.10
120.30
B
B
B
C6
N1
C2
DG
DG
DG
13
13
13
N
1
6.37
0.50
111.50
117.87
B
B
B
C5
C6
N1
DG
DG
DG
13
13
13
N
1
9.33
0.90
116.20
125.53
B
B
B
N1
C2
N2
DG
DG
DG
13
13
13
N
1
-12.74
0.70
119.90
107.16
B
B
B
N3
C2
N2
DG
DG
DG
13
13
13
N
1
-6.33
0.60
128.60
122.27
B
B
B
C5
C6
O6
DG
DG
DG
13
13
13
N
1
-13.00
1.20
119.70
106.70
B
B
B
C3'
O3'
P
DG
DG
DT
13
13
14
Y
1
-5.60
0.90
105.70
100.10
B
B
B
O5'
P
OP1
DT
DT
DT
14
14
14
N
1
-15.31
1.60
120.90
105.59
B
B
B
P
O5'
C5'
DT
DT
DT
14
14
14
N
1
-6.00
0.80
102.40
96.40
B
B
B
C3'
C2'
C1'
DT
DT
DT
14
14
14
N
1
2.85
0.30
108.30
111.15
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
1
-4.83
0.60
122.30
117.47
B
B
B
N3
C2
O2
DT
DT
DT
14
14
14
N
1
-3.73
0.60
119.90
116.17
B
B
B
N3
C4
O4
DT
DT
DT
14
14
14
N
1
-6.41
0.90
105.70
99.29
B
B
B
O5'
P
OP1
A
A
A
15
15
15
N
1
-14.00
1.60
120.90
106.90
B
B
B
P
O5'
C5'
A
A
A
15
15
15
N
1
-7.93
1.10
112.00
104.07
B
B
B
N9
C1'
C2'
A
A
A
15
15
15
N
1
8.22
0.70
108.50
116.72
B
B
B
O4'
C1'
N9
A
A
A
15
15
15
N
1
-10.28
0.90
105.70
95.42
B
B
B
O5'
P
OP1
DT
DT
DT
16
16
16
N
1
3.84
0.60
119.00
122.84
B
B
B
C4
C5
C7
DT
DT
DT
16
16
16
N
1
-4.84
0.60
122.90
118.06
B
B
B
C6
C5
C7
DT
DT
DT
16
16
16
N
1
-7.31
0.90
105.70
98.39
B
B
B
O5'
P
OP2
DA
DA
DA
17
17
17
N
1
-10.57
1.60
120.90
110.33
B
B
B
P
O5'
C5'
DA
DA
DA
17
17
17
N
1
-7.74
0.80
109.40
101.66
B
B
B
O5'
C5'
C4'
DC
DC
DC
18
18
18
N
1
-4.71
0.70
102.20
97.49
B
B
B
C4'
C3'
C2'
DC
DC
DC
18
18
18
N
1
4.34
0.50
119.90
124.24
B
B
B
C2
N3
C4
DC
DC
DC
18
18
18
N
1
-4.45
0.40
121.90
117.45
B
B
B
N3
C4
C5
DC
DC
DC
18
18
18
N
1
3.27
0.50
121.00
124.27
B
B
B
C5
C6
N1
DC
DC
DC
18
18
18
N
1
5.45
0.60
118.90
124.35
B
B
B
N1
C2
O2
DC
DC
DC
18
18
18
N
1
5.32
0.70
120.20
125.52
B
B
B
C5
C4
N4
DC
DC
DC
18
18
18
N
1
-6.95
0.90
105.70
98.75
B
B
B
O5'
P
OP2
DG
DG
DG
19
19
19
N
1
6.14
0.30
108.30
114.44
B
B
B
O4'
C1'
N9
DG
DG
DG
19
19
19
N
1
-4.69
0.60
125.10
120.41
B
B
B
C6
N1
C2
DG
DG
DG
19
19
19
N
1
6.01
0.50
111.50
117.51
B
B
B
C5
C6
N1
DG
DG
DG
19
19
19
N
1
5.66
0.90
116.20
121.86
B
B
B
N1
C2
N2
DG
DG
DG
19
19
19
N
1
-9.19
0.70
119.90
110.71
B
B
B
N3
C2
N2
DG
DG
DG
19
19
19
N
1
-4.90
0.60
128.60
123.70
B
B
B
C5
C6
O6
DG
DG
DG
19
19
19
N
1
-6.92
0.90
105.70
98.78
B
B
B
O5'
P
OP2
DC
DC
DC
20
20
20
N
1
-2.48
0.40
104.50
102.02
B
B
B
O4'
C4'
C3'
DC
DC
DC
20
20
20
N
1
5.61
0.50
119.90
125.51
B
B
B
C2
N3
C4
DC
DC
DC
20
20
20
N
1
-5.30
0.40
121.90
116.60
B
B
B
N3
C4
C5
DC
DC
DC
20
20
20
N
1
4.00
0.60
118.90
122.90
B
B
B
N1
C2
O2
DC
DC
DC
20
20
20
N
1
4.28
0.70
120.20
124.48
B
B
B
C5
C4
N4
DC
DC
DC
20
20
20
N
1
A
A
C6
N1
DG
DG
1
1
-0.047
0.007
1.391
1.344
N
1
A
A
C2
N2
DG
DG
1
1
-0.111
0.010
1.341
1.230
N
1
A
A
O3'
C3'
DC
DC
2
2
-0.044
0.006
1.419
1.375
N
1
A
A
C4'
C3'
DG
DG
3
3
0.074
0.010
1.529
1.603
N
1
A
A
C2'
C1'
DG
DG
3
3
0.063
0.010
1.519
1.582
N
1
A
A
O3'
C3'
DG
DG
3
3
-0.040
0.006
1.419
1.379
N
1
A
A
C6
N1
DG
DG
3
3
-0.046
0.007
1.391
1.345
N
1
A
A
C8
N9
DG
DG
3
3
-0.054
0.007
1.374
1.320
N
1
A
A
C2
N2
DG
DG
3
3
-0.115
0.010
1.341
1.226
N
1
A
A
P
O5'
DT
DT
4
4
0.069
0.010
1.593
1.662
N
1
A
A
C5'
C4'
A
A
5
5
-0.050
0.007
1.508
1.458
N
1
A
A
O3'
C3'
DT
DT
6
6
-0.062
0.006
1.419
1.357
N
1
A
A
C4'
C3'
DA
DA
7
7
0.068
0.010
1.529
1.597
N
1
A
A
O3'
C3'
DA
DA
7
7
-0.078
0.006
1.419
1.341
N
1
A
A
C2'
C1'
DC
DC
8
8
0.073
0.010
1.519
1.592
N
1
A
A
O3'
C3'
DC
DC
8
8
-0.043
0.006
1.419
1.376
N
1
A
A
C6
N1
DG
DG
9
9
-0.049
0.007
1.391
1.342
N
1
A
A
C2
N2
DG
DG
9
9
-0.111
0.010
1.341
1.230
N
1
A
A
N3
C4
DC
DC
10
10
0.049
0.007
1.335
1.384
N
1
B
B
C2'
C1'
DG
DG
11
11
0.075
0.010
1.519
1.594
N
1
B
B
C6
N1
DG
DG
11
11
-0.059
0.007
1.391
1.332
N
1
B
B
C2
N2
DG
DG
11
11
-0.107
0.010
1.341
1.234
N
1
B
B
N3
C4
DC
DC
12
12
0.042
0.007
1.335
1.377
N
1
B
B
O3'
C3'
DG
DG
13
13
-0.045
0.006
1.419
1.374
N
1
B
B
C6
N1
DG
DG
13
13
-0.051
0.007
1.391
1.340
N
1
B
B
C2
N2
DG
DG
13
13
-0.105
0.010
1.341
1.236
N
1
B
B
P
O5'
A
A
15
15
0.067
0.010
1.593
1.660
N
1
B
B
O3'
C3'
DT
DT
16
16
-0.038
0.006
1.419
1.381
N
1
B
B
C2'
C1'
DC
DC
18
18
0.070
0.010
1.519
1.589
N
1
B
B
N3
C4
DC
DC
18
18
0.057
0.007
1.335
1.392
N
1
B
B
C6
N1
DG
DG
19
19
-0.056
0.007
1.391
1.335
N
1
B
B
C8
N9
DG
DG
19
19
-0.050
0.007
1.374
1.324
N
1
B
B
C2
N2
DG
DG
19
19
-0.104
0.010
1.341
1.237
N
1
A
A
O
O
HOH
HOH
38
113
1.64
1_555
2_454
1
A
A
O
O
HOH
HOH
41
85
2.01
1_555
2_454
1
A
B
O3'
N2
DC
DG
10
19
2.13
1_555
3_555
1
B
B
N2
O2
DG
DC
11
18
2.15
1_555
3_555
0.1950000
2.000
2285
1
2.000
TR
isotropic
TR
isotropic
2.000
94
500
0
406
0
0.020
0.010
0.140
fix
fix
2.000
1D88
2285
2.000
1
refinement
PROLSQ
(MODIFIED BY G.J.QUIGLEY)
refinement
MODIFIED
BY G.J.QUIGLEY
CONFORMATIONAL INFLUENCE OF THE RIBOSE 2'-HYDROXYL GROUP: CRYSTAL STRUCTURES OF DNA-RNA CHIMERIC DUPLEXES
1
N
N
1
N
N
2
N
N
2
N
N
hydrog
WATSON-CRICK
A
DG
1
A
N1
DG
1
1_555
B
DC
20
B
N3
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
1
A
N2
DG
1
1_555
B
DC
20
B
O2
DC
10
1_555
hydrog
WATSON-CRICK
A
DG
1
A
O6
DG
1
1_555
B
DC
20
B
N4
DC
10
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N3
DC
2
1_555
B
DG
19
B
N1
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
N4
DC
2
1_555
B
DG
19
B
O6
DG
9
1_555
hydrog
WATSON-CRICK
A
DC
2
A
O2
DC
2
1_555
B
DG
19
B
N2
DG
9
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N1
DG
3
1_555
B
DC
18
B
N3
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
N2
DG
3
1_555
B
DC
18
B
O2
DC
8
1_555
hydrog
WATSON-CRICK
A
DG
3
A
O6
DG
3
1_555
B
DC
18
B
N4
DC
8
1_555
hydrog
WATSON-CRICK
A
DT
4
A
N3
DT
4
1_555
B
DA
17
B
N1
DA
7
1_555
hydrog
WATSON-CRICK
A
DT
4
A
O4
DT
4
1_555
B
DA
17
B
N6
DA
7
1_555
hydrog
WATSON-CRICK
A
A
5
A
N1
A
5
1_555
B
DT
16
B
N3
DT
6
1_555
hydrog
WATSON-CRICK
A
A
5
A
N6
A
5
1_555
B
DT
16
B
O4
DT
6
1_555
hydrog
WATSON-CRICK
A
DT
6
A
N3
DT
6
1_555
B
A
15
B
N1
A
5
1_555
hydrog
WATSON-CRICK
A
DT
6
A
O4
DT
6
1_555
B
A
15
B
N6
A
5
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N1
DA
7
1_555
B
DT
14
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
DA
7
A
N6
DA
7
1_555
B
DT
14
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N3
DC
8
1_555
B
DG
13
B
N1
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
8
A
N4
DC
8
1_555
B
DG
13
B
O6
DG
3
1_555
hydrog
WATSON-CRICK
A
DC
8
A
O2
DC
8
1_555
B
DG
13
B
N2
DG
3
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N1
DG
9
1_555
B
DC
12
B
N3
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
N2
DG
9
1_555
B
DC
12
B
O2
DC
2
1_555
hydrog
WATSON-CRICK
A
DG
9
A
O6
DG
9
1_555
B
DC
12
B
N4
DC
2
1_555
hydrog
WATSON-CRICK
A
DC
10
A
N3
DC
10
1_555
B
DG
11
B
N1
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
10
A
N4
DC
10
1_555
B
DG
11
B
O6
DG
1
1_555
hydrog
WATSON-CRICK
A
DC
10
A
O2
DC
10
1_555
B
DG
11
B
N2
DG
1
1_555
DNA-RNA HYBRID
A-DNA/RNA, DOUBLE HELIX, DNA-RNA HYBRID COMPLEX, DNA-RNA HYBRID
1D88
PDB
1
1D88
1
10
1D88
1
10
1D88
A
1
1
10
11
20
1D88
11
20
1D88
B
1
1
10
19
P 21 21 21