0.038912
0.000000
0.000000
0.000000
0.024350
0.000000
0.000000
0.000000
0.021686
0.000000
0.000000
0.000000
Han, G.W.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
90.00
90.00
90.00
25.699
41.067
46.113
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C9 H14 N3 O8 P
323.197
y
CYTIDINE-5'-MONOPHOSPHATE
RNA linking
Ca 2
40.078
CALCIUM ION
non-polymer
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
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
H2 O
18.015
WATER
non-polymer
C6 H14 O2
118.174
(4S)-2-METHYL-2,4-PENTANEDIOL
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
R
C
N
49
N
O
N
50
R
C
N
51
N
N
N
52
N
C
N
53
N
O
N
54
N
N
N
55
N
C
N
56
N
N
N
57
N
C
N
58
N
C
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
H
N
73
N
CA
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
P
N
183
N
O
N
184
N
O
N
185
N
O
N
186
N
C
N
187
R
C
N
188
N
O
N
189
S
C
N
190
N
O
N
191
R
C
N
192
N
O
N
193
R
C
Y
194
N
N
Y
195
N
C
Y
196
N
N
Y
197
N
C
N
198
N
C
N
199
N
O
N
200
N
N
N
201
N
C
N
202
N
N
N
203
N
N
Y
204
N
C
N
205
N
H
N
206
N
H
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
O
N
220
N
H
N
221
N
H
N
222
N
C
N
223
N
C
N
224
N
O
N
225
N
C
N
226
N
C
N
227
S
C
N
228
N
O
N
229
N
C
N
230
N
H
N
231
N
H
N
232
N
H
N
233
N
H
N
234
N
H
N
235
N
H
N
236
N
H
N
237
N
H
N
238
N
H
N
239
N
H
N
240
N
H
N
241
N
H
N
242
N
H
N
243
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
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
doub
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
doub
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
doub
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
doub
N
102
N
sing
N
103
N
doub
N
104
N
sing
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
doub
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
doub
N
114
N
sing
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
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
Y
134
N
sing
Y
135
N
sing
Y
136
N
doub
N
137
N
sing
Y
138
N
sing
N
139
N
sing
Y
140
N
doub
N
141
N
doub
N
142
N
sing
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
doub
N
147
N
sing
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
doub
N
153
N
sing
N
154
N
sing
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
doub
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
doub
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
N
187
N
sing
N
188
N
sing
N
189
N
doub
N
190
N
sing
N
191
N
sing
N
192
N
sing
N
193
N
sing
N
194
N
sing
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
sing
N
200
N
sing
N
201
N
sing
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
Y
211
N
sing
Y
212
N
sing
Y
213
N
doub
N
214
N
sing
Y
215
N
sing
N
216
N
sing
Y
217
N
doub
N
218
N
doub
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
doub
N
224
N
sing
N
225
N
sing
N
226
N
sing
N
227
N
sing
N
228
N
sing
N
229
N
sing
N
230
N
sing
N
231
N
sing
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
sing
N
236
N
sing
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
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
57
213
218
10.1107/S0907444900017595
11173466
Direct-methods determination of an RNA/DNA hybrid decamer at 1.15 A resolution.
2001
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
334
653
665
10.1016/j.jmb.2003.09.057
14636594
An unusual sugar conformation in the structure of an RNA/DNA decamer of the polypurine tract may affect recognition by RNase H.
2003
10.2210/pdb1g4q/pdb
pdb_00001g4q
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
123
1
mirrors
CCD
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
1.07200
1.0
X8C
NSLS
1.07200
SYNCHROTRON
NSLS BEAMLINE X8C
3255.076
5'-R(*CP*AP*AP*AP*GP*AP*AP*AP*AP*G)-3'
POLYPURINE TRACT OF HIV-1
1
syn
polymer
2991.961
5'-D(*CP*TP*TP*TP*TP*CP*TP*TP*TP*G)-3'
1
syn
polymer
40.078
CALCIUM ION
3
syn
non-polymer
118.174
(4S)-2-METHYL-2,4-PENTANEDIOL
1
syn
non-polymer
18.015
water
137
nat
water
no
no
CAAAGAAAAG
CAAAGAAAAG
A
polyribonucleotide
no
no
(DC)(DT)(DT)(DT)(DT)(DC)(DT)(DT)(DT)(DG)
CTTTTCTTTG
B
polydeoxyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1
1.93
36.36
VAPOR DIFFUSION, SITTING DROP
6.8
calcium acetate, spermidine, beta-octaglucoside, MPD, sodium cacodylate, pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
calcium acetate
1
spermidine
1
beta-octaglucoside
1
MPD
1
sodium cacodylate
1
MPD
2
-28.092
1
19
A
1
B
20
-1.574
A_C1:DG20_B
1
-11.024
0.112
0.591
-0.086
2.486
1
20
A
2
B
19
-4.172
A_A2:DT19_B
2
-8.284
0.102
-0.049
-0.080
7.174
1
20
A
3
B
18
0.062
A_A3:DT18_B
3
-20.833
-0.003
0.233
-0.135
0.853
1
20
A
4
B
17
11.748
A_A4:DT17_B
4
-24.298
0.044
0.079
-0.065
-18.043
1
19
A
5
B
16
-1.525
A_G5:DC16_B
5
-4.301
-0.271
-0.194
-0.146
-15.926
1
20
A
6
B
15
-2.910
A_A6:DT15_B
6
-4.856
0.079
-0.316
-0.129
-5.355
1
20
A
7
B
14
0.398
A_A7:DT14_B
7
-6.343
0.058
-0.134
-0.074
-1.749
1
20
A
8
B
13
2.956
A_A8:DT13_B
8
-12.382
-0.021
-0.130
-0.169
-5.219
1
20
A
9
B
12
1.368
A_A9:DT12_B
9
-3.683
-0.071
-0.124
-0.174
7.344
1
19
A
10
B
11
3.362
A_G10:DC11_B
10
-6.757
-0.090
0.159
-0.032
2.762
28.770
A
A
1
2
16.090
B
B
20
19
2.782
7.886
-0.268
0.433
AA_C1A2:DT19DG20_BB
1
2.575
-5.254
27.573
-0.659
1.039
3.118
33.908
A
A
2
3
-0.491
B
B
19
18
3.190
-0.286
0.348
-0.947
AA_A2A3:DT18DT19_BB
2
-4.875
8.386
33.565
-1.579
-1.355
3.194
33.514
A
A
3
4
12.294
B
B
18
17
3.495
7.038
0.589
-1.020
AA_A3A4:DT17DT18_BB
3
-1.020
1.781
32.772
-2.967
-1.195
2.998
42.445
A
A
4
5
26.126
B
B
17
16
3.551
18.234
-1.817
-1.207
AA_A4G5:DC16DT17_BB
4
-8.031
11.507
37.670
-3.646
1.638
2.710
33.712
A
A
5
6
18.579
B
B
16
15
3.387
10.576
0.214
-1.687
AA_G5A6:DT15DC16_BB
5
4.103
-7.209
31.798
-4.562
0.272
2.676
28.048
A
A
6
7
16.588
B
B
15
14
3.200
7.928
0.734
-1.579
AA_A6A7:DT14DT15_BB
6
1.782
-3.729
26.867
-4.975
-1.129
2.776
26.256
A
A
7
8
12.303
B
B
14
13
3.251
5.547
0.960
-2.103
AA_A7A8:DT13DT14_BB
7
0.974
-2.160
25.655
-6.024
-1.868
3.102
37.457
A
A
8
9
9.003
B
B
13
12
3.260
5.749
-1.253
-1.613
AA_A8A9:DT12DT13_BB
8
-4.253
6.661
36.792
-3.252
1.403
2.815
28.132
A
A
9
10
5.506
B
B
12
11
2.991
2.672
0.753
-1.763
AA_A9G10:DC11DT12_BB
9
0.045
-0.093
28.008
-4.184
-1.540
software
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
Refinement description
Data collection
Database references
Derived calculations
1
0
2003-07-08
1
1
2008-04-27
1
2
2011-07-13
1
3
2017-10-04
1
4
2024-02-07
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_asym_id
_pdbx_struct_conn_angle.ptnr1_auth_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_asym_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_comp_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr1_symmetry
_pdbx_struct_conn_angle.ptnr3_auth_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_asym_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.ptnr3_symmetry
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_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.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_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
NDB
Y
NDB
2000-10-27
REL
REL
CA
CALCIUM ION
MPD
(4S)-2-METHYL-2,4-PENTANEDIOL
HOH
water
CA
31
3
CA
CA
31
A
CA
33
3
CA
CA
33
A
CA
34
3
CA
CA
34
A
MPD
25
4
MPD
MPD
25
A
HOH
101
5
HOH
HOH
101
A
HOH
102
5
HOH
HOH
102
A
HOH
103
5
HOH
HOH
103
A
HOH
104
5
HOH
HOH
104
A
HOH
105
5
HOH
HOH
105
A
HOH
106
5
HOH
HOH
106
A
HOH
107
5
HOH
HOH
107
A
HOH
108
5
HOH
HOH
108
A
HOH
109
5
HOH
HOH
109
A
HOH
110
5
HOH
HOH
110
A
HOH
111
5
HOH
HOH
111
A
HOH
112
5
HOH
HOH
112
A
HOH
113
5
HOH
HOH
113
A
HOH
115
5
HOH
HOH
115
A
HOH
118
5
HOH
HOH
118
A
HOH
132
5
HOH
HOH
132
A
HOH
135
5
HOH
HOH
135
A
HOH
136
5
HOH
HOH
136
A
HOH
137
5
HOH
HOH
137
A
HOH
138
5
HOH
HOH
138
A
HOH
139
5
HOH
HOH
139
A
HOH
140
5
HOH
HOH
140
A
HOH
141
5
HOH
HOH
141
A
HOH
142
5
HOH
HOH
142
A
HOH
143
5
HOH
HOH
143
A
HOH
144
5
HOH
HOH
144
A
HOH
145
5
HOH
HOH
145
A
HOH
146
5
HOH
HOH
146
A
HOH
147
5
HOH
HOH
147
A
HOH
151
5
HOH
HOH
151
A
HOH
152
5
HOH
HOH
152
A
HOH
153
5
HOH
HOH
153
A
HOH
154
5
HOH
HOH
154
A
HOH
155
5
HOH
HOH
155
A
HOH
156
5
HOH
HOH
156
A
HOH
157
5
HOH
HOH
157
A
HOH
158
5
HOH
HOH
158
A
HOH
159
5
HOH
HOH
159
A
HOH
160
5
HOH
HOH
160
A
HOH
162
5
HOH
HOH
162
A
HOH
163
5
HOH
HOH
163
A
HOH
164
5
HOH
HOH
164
A
HOH
166
5
HOH
HOH
166
A
HOH
167
5
HOH
HOH
167
A
HOH
168
5
HOH
HOH
168
A
HOH
170
5
HOH
HOH
170
A
HOH
171
5
HOH
HOH
171
A
HOH
172
5
HOH
HOH
172
A
HOH
176
5
HOH
HOH
176
A
HOH
177
5
HOH
HOH
177
A
HOH
178
5
HOH
HOH
178
A
HOH
179
5
HOH
HOH
179
A
HOH
182
5
HOH
HOH
182
A
HOH
183
5
HOH
HOH
183
A
HOH
185
5
HOH
HOH
185
A
HOH
188
5
HOH
HOH
188
A
HOH
192
5
HOH
HOH
192
A
HOH
195
5
HOH
HOH
195
A
HOH
196
5
HOH
HOH
196
A
HOH
199
5
HOH
HOH
199
A
HOH
201
5
HOH
HOH
201
A
HOH
206
5
HOH
HOH
206
A
HOH
208
5
HOH
HOH
208
A
HOH
210
5
HOH
HOH
210
A
HOH
211
5
HOH
HOH
211
A
HOH
213
5
HOH
HOH
213
A
HOH
217
5
HOH
HOH
217
A
HOH
218
5
HOH
HOH
218
A
HOH
223
5
HOH
HOH
223
A
HOH
225
5
HOH
HOH
225
A
HOH
226
5
HOH
HOH
226
A
HOH
228
5
HOH
HOH
228
A
HOH
229
5
HOH
HOH
229
A
HOH
230
5
HOH
HOH
230
A
HOH
231
5
HOH
HOH
231
A
HOH
237
5
HOH
HOH
237
A
HOH
238
5
HOH
HOH
238
A
HOH
241
5
HOH
HOH
241
A
HOH
243
5
HOH
HOH
243
A
HOH
244
5
HOH
HOH
244
A
HOH
245
5
HOH
HOH
245
A
HOH
246
5
HOH
HOH
246
A
HOH
249
5
HOH
HOH
249
A
HOH
251
5
HOH
HOH
251
A
HOH
100
5
HOH
HOH
100
B
HOH
119
5
HOH
HOH
119
B
HOH
120
5
HOH
HOH
120
B
HOH
121
5
HOH
HOH
121
B
HOH
122
5
HOH
HOH
122
B
HOH
124
5
HOH
HOH
124
B
HOH
125
5
HOH
HOH
125
B
HOH
126
5
HOH
HOH
126
B
HOH
127
5
HOH
HOH
127
B
HOH
128
5
HOH
HOH
128
B
HOH
129
5
HOH
HOH
129
B
HOH
130
5
HOH
HOH
130
B
HOH
131
5
HOH
HOH
131
B
HOH
133
5
HOH
HOH
133
B
HOH
134
5
HOH
HOH
134
B
HOH
173
5
HOH
HOH
173
B
HOH
174
5
HOH
HOH
174
B
HOH
181
5
HOH
HOH
181
B
HOH
186
5
HOH
HOH
186
B
HOH
187
5
HOH
HOH
187
B
HOH
189
5
HOH
HOH
189
B
HOH
190
5
HOH
HOH
190
B
HOH
193
5
HOH
HOH
193
B
HOH
194
5
HOH
HOH
194
B
HOH
197
5
HOH
HOH
197
B
HOH
200
5
HOH
HOH
200
B
HOH
202
5
HOH
HOH
202
B
HOH
203
5
HOH
HOH
203
B
HOH
204
5
HOH
HOH
204
B
HOH
205
5
HOH
HOH
205
B
HOH
207
5
HOH
HOH
207
B
HOH
209
5
HOH
HOH
209
B
HOH
212
5
HOH
HOH
212
B
HOH
214
5
HOH
HOH
214
B
HOH
215
5
HOH
HOH
215
B
HOH
216
5
HOH
HOH
216
B
HOH
219
5
HOH
HOH
219
B
HOH
220
5
HOH
HOH
220
B
HOH
221
5
HOH
HOH
221
B
HOH
222
5
HOH
HOH
222
B
HOH
224
5
HOH
HOH
224
B
HOH
227
5
HOH
HOH
227
B
HOH
232
5
HOH
HOH
232
B
HOH
233
5
HOH
HOH
233
B
HOH
234
5
HOH
HOH
234
B
HOH
235
5
HOH
HOH
235
B
HOH
236
5
HOH
HOH
236
B
HOH
239
5
HOH
HOH
239
B
HOH
240
5
HOH
HOH
240
B
HOH
247
5
HOH
HOH
247
B
HOH
250
5
HOH
HOH
250
B
HOH
252
5
HOH
HOH
252
B
HOH
253
5
HOH
HOH
253
B
C
1
n
1
C
1
A
A
2
n
2
A
2
A
A
3
n
3
A
3
A
A
4
n
4
A
4
A
G
5
n
5
G
5
A
A
6
n
6
A
6
A
A
7
n
7
A
7
A
A
8
n
8
A
8
A
A
9
n
9
A
9
A
G
10
n
10
G
10
A
C
11
n
1
DC
11
B
T
12
n
2
DT
12
B
T
13
n
3
DT
13
B
T
14
n
4
DT
14
B
T
15
n
5
DT
15
B
C
16
n
6
DC
16
B
T
17
n
7
DT
17
B
T
18
n
8
DT
18
B
T
19
n
9
DT
19
B
G
20
n
10
DG
20
B
0.14
0.143
0.182
805
5
5
15321
author_defined_assembly
2
dimeric
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
111
G
O
HOH
1_555
84.1
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
113
G
O
HOH
1_555
99.0
A
HOH
111
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
113
G
O
HOH
1_555
83.0
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
115
G
O
HOH
1_555
83.9
A
HOH
111
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
115
G
O
HOH
1_555
93.1
A
HOH
113
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
115
G
O
HOH
1_555
174.8
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
118
G
O
HOH
1_555
171.2
A
HOH
111
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
118
G
O
HOH
1_555
87.7
A
HOH
113
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
118
G
O
HOH
1_555
83.1
A
HOH
115
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
A
HOH
118
G
O
HOH
1_555
93.3
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
90.9
A
HOH
111
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
172.3
A
HOH
113
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
91.9
A
HOH
115
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
92.4
A
HOH
118
G
O
HOH
1_555
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
97.5
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
163
G
O
HOH
1_555
87.3
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
164
G
O
HOH
1_555
85.3
A
HOH
163
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
164
G
O
HOH
1_555
93.1
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
166
G
O
HOH
1_555
172.3
A
HOH
163
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
166
G
O
HOH
1_555
94.7
A
HOH
164
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
166
G
O
HOH
1_555
87.2
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
167
G
O
HOH
1_555
89.3
A
HOH
163
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
167
G
O
HOH
1_555
176.6
A
HOH
164
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
167
G
O
HOH
1_555
87.0
A
HOH
166
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
167
G
O
HOH
1_555
88.7
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
93.9
A
HOH
163
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
90.4
A
HOH
164
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
176.3
A
HOH
166
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
93.5
A
HOH
167
G
O
HOH
1_555
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
89.4
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
A
HOH
105
G
O
HOH
2_555
88.4
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
A
HOH
112
G
O
HOH
1_555
81.1
A
HOH
105
G
O
HOH
2_555
A
CA
34
E
CA
CA
1_555
A
HOH
112
G
O
HOH
1_555
109.6
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
A
HOH
176
G
O
HOH
1_555
159.9
A
HOH
105
G
O
HOH
2_555
A
CA
34
E
CA
CA
1_555
A
HOH
176
G
O
HOH
1_555
93.2
A
HOH
112
G
O
HOH
1_555
A
CA
34
E
CA
CA
1_555
A
HOH
176
G
O
HOH
1_555
79.5
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
B
DT
18
B
OP1
DT
8
3_646
91.4
A
HOH
105
G
O
HOH
2_555
A
CA
34
E
CA
CA
1_555
B
DT
18
B
OP1
DT
8
3_646
161.5
A
HOH
112
G
O
HOH
1_555
A
CA
34
E
CA
CA
1_555
B
DT
18
B
OP1
DT
8
3_646
88.6
A
HOH
176
G
O
HOH
1_555
A
CA
34
E
CA
CA
1_555
B
DT
18
B
OP1
DT
8
3_646
93.4
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
72.0
A
HOH
105
G
O
HOH
2_555
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
87.5
A
HOH
112
G
O
HOH
1_555
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
147.7
A
HOH
176
G
O
HOH
1_555
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
128.1
B
DT
18
B
OP1
DT
8
3_646
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
74.9
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
10.22
1.30
114.00
124.22
A
A
A
N1
C1'
C2'
C
C
C
1
1
1
N
1
-3.13
0.50
117.40
114.27
A
A
A
C4
C5
C6
C
C
C
1
1
1
N
1
-4.33
0.70
120.20
115.87
A
A
A
C5
C4
N4
C
C
C
1
1
1
N
1
-5.44
0.70
101.30
95.86
A
A
A
C3'
C2'
C1'
A
A
A
2
2
2
N
1
5.95
0.70
108.50
114.45
A
A
A
O4'
C1'
N9
A
A
A
2
2
2
N
1
10.25
1.20
119.70
129.95
A
A
A
C3'
O3'
P
A
A
A
2
2
3
Y
1
5.17
0.70
108.50
113.67
A
A
A
O4'
C1'
N9
A
A
A
6
6
6
N
1
3.63
0.60
118.60
122.23
A
A
A
C6
N1
C2
A
A
A
8
8
8
N
1
-3.10
0.50
117.70
114.60
A
A
A
C5
C6
N1
A
A
A
8
8
8
N
1
-9.09
1.10
112.00
102.91
A
A
A
N9
C1'
C2'
G
G
G
10
10
10
N
1
5.21
0.70
108.50
113.71
A
A
A
O4'
C1'
N9
G
G
G
10
10
10
N
1
2.03
0.30
108.30
110.33
B
B
B
O4'
C1'
N1
DT
DT
DT
12
12
12
N
1
3.10
0.30
108.30
111.40
B
B
B
O4'
C1'
N1
DT
DT
DT
13
13
13
N
1
2.49
0.30
108.30
110.79
B
B
B
O4'
C1'
N1
DT
DT
DT
14
14
14
N
1
3.01
0.30
108.30
111.31
B
B
B
O4'
C1'
N1
DT
DT
DT
17
17
17
N
1
A
A
C2'
C1'
A
A
2
2
0.070
0.011
1.529
1.599
N
1
A
A
C2'
C1'
G
G
10
10
0.069
0.011
1.529
1.598
N
Konnert-Hendrickson conjugate-gradient algorithm
0.186
0.143
1.15
9.59
4330
864
16408
16408
11665
96.1
RANDOM
1
0.0
0.0
AB INITIO PHASING
1.15
9.59
145
562
3
414
0
0.017
0.019
1.10
9.59
1G4Q
19181
0.081
1
93.5
0.081
1.10
1.13
19181
0.424
65.7
data reduction
DENZO
refinement
SHELXL-97
RNA/DNA HYBRID DECAMER OF CAAAGAAAAG/CTTTTCTTTG
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
4
N
N
5
N
N
5
N
N
metalc
2.198
A
A
9
A
OP1
A
9
1_555
A
CA
31
C
CA
CA
1_555
metalc
2.023
A
A
9
A
OP2
A
9
1_555
A
CA
33
D
CA
CA
1_555
metalc
2.184
A
G
10
A
OP1
G
10
1_555
A
CA
34
E
CA
CA
1_555
metalc
2.280
A
CA
31
C
CA
CA
1_555
A
HOH
111
G
O
HOH
1_555
metalc
2.260
A
CA
31
C
CA
CA
1_555
A
HOH
113
G
O
HOH
1_555
metalc
2.293
A
CA
31
C
CA
CA
1_555
A
HOH
115
G
O
HOH
1_555
metalc
2.321
A
CA
31
C
CA
CA
1_555
A
HOH
118
G
O
HOH
1_555
metalc
2.245
A
CA
31
C
CA
CA
1_555
B
DT
18
B
OP2
DT
8
3_646
metalc
2.038
A
CA
33
D
CA
CA
1_555
A
HOH
163
G
O
HOH
1_555
metalc
2.128
A
CA
33
D
CA
CA
1_555
A
HOH
164
G
O
HOH
1_555
metalc
1.993
A
CA
33
D
CA
CA
1_555
A
HOH
166
G
O
HOH
1_555
metalc
2.158
A
CA
33
D
CA
CA
1_555
A
HOH
167
G
O
HOH
1_555
metalc
2.071
A
CA
33
D
CA
CA
1_555
A
HOH
168
G
O
HOH
1_555
metalc
2.425
A
CA
34
E
CA
CA
1_555
A
HOH
105
G
O
HOH
2_555
metalc
2.457
A
CA
34
E
CA
CA
1_555
A
HOH
112
G
O
HOH
1_555
metalc
2.310
A
CA
34
E
CA
CA
1_555
A
HOH
176
G
O
HOH
1_555
metalc
2.225
A
CA
34
E
CA
CA
1_555
B
DT
18
B
OP1
DT
8
3_646
metalc
2.898
A
CA
34
E
CA
CA
1_555
B
DG
20
B
OP1
DG
10
2_555
hydrog
WATSON-CRICK
A
C
1
A
N3
C
1
1_555
B
DG
20
B
N1
DG
10
1_555
hydrog
WATSON-CRICK
A
C
1
A
N4
C
1
1_555
B
DG
20
B
O6
DG
10
1_555
hydrog
WATSON-CRICK
A
C
1
A
O2
C
1
1_555
B
DG
20
B
N2
DG
10
1_555
hydrog
WATSON-CRICK
A
A
2
A
N1
A
2
1_555
B
DT
19
B
N3
DT
9
1_555
hydrog
WATSON-CRICK
A
A
2
A
N6
A
2
1_555
B
DT
19
B
O4
DT
9
1_555
hydrog
WATSON-CRICK
A
A
3
A
N1
A
3
1_555
B
DT
18
B
N3
DT
8
1_555
hydrog
WATSON-CRICK
A
A
3
A
N6
A
3
1_555
B
DT
18
B
O4
DT
8
1_555
hydrog
WATSON-CRICK
A
A
4
A
N1
A
4
1_555
B
DT
17
B
N3
DT
7
1_555
hydrog
WATSON-CRICK
A
A
4
A
N6
A
4
1_555
B
DT
17
B
O4
DT
7
1_555
hydrog
WATSON-CRICK
A
G
5
A
N1
G
5
1_555
B
DC
16
B
N3
DC
6
1_555
hydrog
WATSON-CRICK
A
G
5
A
N2
G
5
1_555
B
DC
16
B
O2
DC
6
1_555
hydrog
WATSON-CRICK
A
G
5
A
O6
G
5
1_555
B
DC
16
B
N4
DC
6
1_555
hydrog
WATSON-CRICK
A
A
6
A
N1
A
6
1_555
B
DT
15
B
N3
DT
5
1_555
hydrog
WATSON-CRICK
A
A
6
A
N6
A
6
1_555
B
DT
15
B
O4
DT
5
1_555
hydrog
WATSON-CRICK
A
A
7
A
N1
A
7
1_555
B
DT
14
B
N3
DT
4
1_555
hydrog
WATSON-CRICK
A
A
7
A
N6
A
7
1_555
B
DT
14
B
O4
DT
4
1_555
hydrog
WATSON-CRICK
A
A
8
A
N1
A
8
1_555
B
DT
13
B
N3
DT
3
1_555
hydrog
WATSON-CRICK
A
A
8
A
N6
A
8
1_555
B
DT
13
B
O4
DT
3
1_555
hydrog
WATSON-CRICK
A
A
9
A
N1
A
9
1_555
B
DT
12
B
N3
DT
2
1_555
hydrog
WATSON-CRICK
A
A
9
A
N6
A
9
1_555
B
DT
12
B
O4
DT
2
1_555
hydrog
WATSON-CRICK
A
G
10
A
N1
G
10
1_555
B
DC
11
B
N3
DC
1
1_555
hydrog
WATSON-CRICK
A
G
10
A
N2
G
10
1_555
B
DC
11
B
O2
DC
1
1_555
hydrog
WATSON-CRICK
A
G
10
A
O6
G
10
1_555
B
DC
11
B
N4
DC
1
1_555
DNA-RNA HYBRID
RNA/DNA HYBRID, POLYPURINE TRACT OF HIV-1, DIRECT METHODS, DNA-RNA COMPLEX, DNA-RNA HYBRID
1G4Q
PDB
1
1G4Q
1G4Q
PDB
2
1G4Q
1
10
1G4Q
1
10
1G4Q
A
1
1
10
11
20
1G4Q
11
20
1G4Q
B
2
1
10
BINDING SITE FOR RESIDUE CA A 31
A
CA
31
Software
6
BINDING SITE FOR RESIDUE CA A 33
A
CA
33
Software
6
BINDING SITE FOR RESIDUE CA A 34
A
CA
34
Software
6
BINDING SITE FOR RESIDUE MPD A 25
A
MPD
25
Software
8
A
A
9
A
A
9
6
1_555
A
HOH
111
G
HOH
6
1_555
A
HOH
113
G
HOH
6
1_555
A
HOH
115
G
HOH
6
1_555
A
HOH
118
G
HOH
6
1_555
B
DT
18
B
DT
8
6
3_646
A
A
9
A
A
9
6
1_555
A
HOH
163
G
HOH
6
1_555
A
HOH
164
G
HOH
6
1_555
A
HOH
166
G
HOH
6
1_555
A
HOH
167
G
HOH
6
1_555
A
HOH
168
G
HOH
6
1_555
A
G
10
A
G
10
6
1_555
A
HOH
105
G
HOH
6
2_555
A
HOH
112
G
HOH
6
1_555
A
HOH
176
G
HOH
6
1_555
B
DT
18
B
DT
8
6
3_646
B
DG
20
B
DG
10
6
2_555
A
A
4
A
A
4
8
1_555
A
G
5
A
G
5
8
1_555
A
A
6
A
A
6
8
1_555
A
HOH
107
G
HOH
8
1_555
A
HOH
208
G
HOH
8
1_555
A
HOH
211
G
HOH
8
1_555
A
HOH
238
G
HOH
8
1_555
B
HOH
133
H
HOH
8
1_555
19
P 21 21 21