0.021195
0.000000
0.000000
0.000000
0.021195
0.000000
0.000000
0.000000
0.012494
0.00000
0.00000
0.00000
Xiong, Y.
Deng, J.
Sudarsanakumar, C.
Sundaralingam, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
32
90.00
90.00
90.00
47.180
47.180
80.040
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 H13 Br N3 O7 P
386.093
n
5-BROMO-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
H2 O
18.015
WATER
non-polymer
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
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
BR
N
75
N
P
N
76
N
O
N
77
N
O
N
78
N
O
N
79
N
N
N
80
N
C
N
81
N
C
N
82
N
O
N
83
N
N
N
84
N
C
N
85
N
N
N
86
N
C
N
87
N
C
N
88
N
C
N
89
R
C
N
90
N
O
N
91
R
C
N
92
S
C
N
93
N
O
N
94
N
O
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
R
C
N
119
N
O
N
120
R
C
Y
121
N
N
Y
122
N
C
Y
123
N
N
Y
124
N
C
N
125
N
C
N
126
N
O
N
127
N
N
N
128
N
C
N
129
N
N
N
130
N
N
Y
131
N
C
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
H
N
146
N
O
N
147
N
H
N
148
N
H
N
149
N
O
N
150
N
P
N
151
N
O
N
152
N
O
N
153
N
O
N
154
N
C
N
155
R
C
N
156
N
O
N
157
S
C
N
158
N
O
N
159
R
C
N
160
N
O
N
161
R
C
N
162
N
N
N
163
N
C
N
164
N
O
N
165
N
N
N
166
N
C
N
167
N
O
N
168
N
C
N
169
N
C
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
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
doub
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
doub
N
87
N
sing
N
88
N
doub
N
89
N
sing
N
90
N
doub
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
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
N
134
N
sing
Y
135
N
sing
Y
136
N
sing
Y
137
N
doub
N
138
N
sing
Y
139
N
sing
N
140
N
sing
Y
141
N
doub
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
sing
N
147
N
doub
N
148
N
sing
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
sing
N
155
N
doub
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
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
doub
N
186
N
sing
N
187
N
sing
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
313
573
582
10.1006/jmbi.2001.5045
11676540
Crystal structure of an RNA duplex r(gugucgcac)(2) with uridine bulges.
2001
10.2210/pdb1j9h/pdb
pdb_00001j9h
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100
1
CCD
ADSC QUANTUM 4
MAD
M
x-ray
1
0.92
1.0
14-BM-D
APS
0.92
SYNCHROTRON
APS BEAMLINE 14-BM-D
2910.639
5'-R(*GP*UP*GP*UP*CP*GP*(CBR)P*AP*C)-3'
4
syn
polymer
40.078
CALCIUM ION
4
syn
non-polymer
18.015
water
146
nat
water
no
yes
GUGUCG(CBR)AC
GUGUCGCAC
A,B,C,D
polyribonucleotide
n
n
n
n
n
n
n
n
n
1
1.96
37.09
VAPOR DIFFUSION, HANGING DROP
6.0
20mM sodium cacodylate (pH 6.0), 10mM calcium chloride, 100mM
sodium chloride, and 10%(v/v) MPD against 50% MPD in the reservoir, VAPOR DIFFUSION, HANGING DROP
sodium cacodylate
1
CaCl2
1
NaCl
1
MPD
1
MPD
2
6.645
1
19
A
1
B
18
-0.714
A_G1:C18_B
1
-19.030
-0.265
0.434
-0.184
8.761
1
20
A
2
B
17
7.947
A_U2:A17_B
2
-22.781
0.082
0.298
-0.113
-0.333
1
19
A
3
B
16
-2.129
A_G3:CBR16_B
3
-9.006
-0.154
-0.039
-0.134
1.786
1
19
A
5
B
15
1.796
A_C5:G15_B
4
-2.125
0.169
-0.183
-0.105
0.179
1
19
A
6
B
14
1.612
A_G6:C14_B
5
-0.294
-0.142
-0.096
-0.101
-2.586
1
19
A
7
B
12
-2.170
A_CBR7:G12_B
6
-9.927
0.089
0.116
-0.130
-11.305
1
20
A
8
B
11
6.958
A_A8:U11_B
7
-24.032
-0.107
0.105
-0.140
-7.910
1
19
A
9
B
10
-1.580
A_C9:G10_B
8
-18.282
0.247
0.439
-0.241
9.382
1
19
C
19
D
36
-1.656
C_G19:C36_D
9
-17.250
-0.188
0.484
-0.180
9.619
1
20
C
20
D
35
7.074
C_U20:A35_D
10
-21.615
0.157
0.125
-0.118
1.145
1
19
C
21
D
34
-2.016
C_G21:CBR34_D
11
-11.652
-0.076
-0.021
-0.142
-2.503
1
19
C
23
D
33
0.965
C_C23:G33_D
12
1.546
0.131
-0.104
-0.087
0.469
1
19
C
24
D
32
1.122
C_G24:C32_D
13
0.239
-0.158
-0.117
-0.072
1.608
1
19
C
25
D
30
-1.902
C_CBR25:G30_D
14
-10.571
0.113
-0.064
-0.149
-9.582
1
20
C
26
D
29
10.101
C_A26:U29_D
15
-23.447
-0.175
0.185
-0.117
-6.016
1
19
C
27
D
28
1.140
C_C27:G28_D
16
-19.520
0.262
0.309
-0.177
3.063
34.248
A
A
1
2
7.440
B
B
18
17
3.218
4.370
0.342
-1.015
AA_G1U2:A17C18_BB
1
-0.520
0.885
33.972
-2.386
-0.660
2.188
38.063
A
A
2
3
28.047
B
B
17
16
3.218
17.635
-0.366
-1.490
AA_U2G3:CBR16A17_BB
2
1.405
-2.235
33.837
-4.255
0.718
2.974
51.423
A
A
3
5
6.987
B
B
16
15
3.027
6.048
-2.025
-1.131
AA_G3C5:G15CBR16_BB
3
-2.523
2.914
51.032
-1.685
2.175
3.363
28.358
A
A
5
6
2.718
B
B
15
14
3.460
1.331
-0.146
-2.088
AA_C5G6:C14G15_BB
4
-0.771
1.575
28.317
-4.582
0.112
2.929
51.494
A
A
6
7
10.371
B
B
14
12
3.057
8.965
2.070
-1.211
AA_G6CBR7:G12C14_BB
5
3.040
-3.517
50.675
-1.958
-2.191
2.174
37.632
A
A
7
8
29.952
B
B
12
11
3.269
18.527
0.498
-1.490
AA_CBR7A8:U11G12_BB
6
1.632
-2.639
32.860
-4.463
-0.583
3.009
33.448
A
A
8
9
7.792
B
B
11
10
3.190
4.471
-0.224
-1.226
AA_A8C9:G10U11_BB
7
-0.951
1.657
33.143
-2.833
0.240
3.139
33.732
C
C
19
20
6.049
D
D
36
35
3.281
3.504
0.441
-1.352
CC_G19U20:A35C36_DD
8
0.976
-1.685
33.541
-2.889
-0.604
2.150
37.349
C
C
20
21
29.536
D
D
35
34
3.261
18.163
-0.675
-1.558
CC_U20G21:CBR34A35_DD
9
-0.766
1.246
32.766
-4.557
0.965
3.053
51.220
C
C
21
23
11.217
D
D
34
33
3.172
9.639
-2.192
-1.209
CC_G21C23:G33CBR34_DD
10
-3.767
4.384
50.233
-2.038
2.285
3.248
27.728
C
C
23
24
3.210
D
D
33
32
3.366
1.537
0.023
-2.060
CC_C23G24:C32G33_DD
11
0.916
-1.913
27.672
-4.674
0.175
2.958
50.313
C
C
24
25
9.851
D
D
32
30
3.070
8.337
2.223
-1.259
CC_G24CBR25:G30C32_DD
12
3.031
-3.582
49.575
-2.035
-2.413
2.243
36.503
C
C
25
26
28.659
D
D
30
29
3.337
17.276
0.486
-1.536
CC_CBR25A26:U29G30_DD
13
-0.804
1.334
32.270
-4.627
-0.878
2.900
34.461
C
C
26
27
9.687
D
D
29
28
3.130
5.714
-0.603
-1.170
CC_A26C27:G28U29_DD
14
0.070
-0.119
33.998
-2.799
1.029
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
2001-10-26
1
1
2008-04-27
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_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.conn_type_id
_struct_conn.id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr2_label_alt_id
_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
RCSB
Y
RCSB
2001-05-25
REL
CA
CALCIUM ION
HOH
water
CA
103
2
CA
CA
103
A
CA
104
2
CA
CA
104
B
CA
101
2
CA
CA
101
C
CA
102
2
CA
CA
102
D
HOH
123
3
HOH
HOH
123
A
HOH
127
3
HOH
HOH
127
A
HOH
134
3
HOH
HOH
134
A
HOH
146
3
HOH
HOH
146
A
HOH
150
3
HOH
HOH
150
A
HOH
151
3
HOH
HOH
151
A
HOH
154
3
HOH
HOH
154
A
HOH
157
3
HOH
HOH
157
A
HOH
159
3
HOH
HOH
159
A
HOH
164
3
HOH
HOH
164
A
HOH
165
3
HOH
HOH
165
A
HOH
175
3
HOH
HOH
175
A
HOH
179
3
HOH
HOH
179
A
HOH
195
3
HOH
HOH
195
A
HOH
196
3
HOH
HOH
196
A
HOH
202
3
HOH
HOH
202
A
HOH
209
3
HOH
HOH
209
A
HOH
210
3
HOH
HOH
210
A
HOH
211
3
HOH
HOH
211
A
HOH
213
3
HOH
HOH
213
A
HOH
214
3
HOH
HOH
214
A
HOH
217
3
HOH
HOH
217
A
HOH
226
3
HOH
HOH
226
A
HOH
228
3
HOH
HOH
228
A
HOH
229
3
HOH
HOH
229
A
HOH
230
3
HOH
HOH
230
A
HOH
231
3
HOH
HOH
231
A
HOH
234
3
HOH
HOH
234
A
HOH
246
3
HOH
HOH
246
A
HOH
247
3
HOH
HOH
247
A
HOH
248
3
HOH
HOH
248
A
HOH
251
3
HOH
HOH
251
A
HOH
109
3
HOH
HOH
109
B
HOH
111
3
HOH
HOH
111
B
HOH
114
3
HOH
HOH
114
B
HOH
118
3
HOH
HOH
118
B
HOH
122
3
HOH
HOH
122
B
HOH
144
3
HOH
HOH
144
B
HOH
148
3
HOH
HOH
148
B
HOH
153
3
HOH
HOH
153
B
HOH
158
3
HOH
HOH
158
B
HOH
162
3
HOH
HOH
162
B
HOH
163
3
HOH
HOH
163
B
HOH
169
3
HOH
HOH
169
B
HOH
174
3
HOH
HOH
174
B
HOH
180
3
HOH
HOH
180
B
HOH
184
3
HOH
HOH
184
B
HOH
186
3
HOH
HOH
186
B
HOH
187
3
HOH
HOH
187
B
HOH
200
3
HOH
HOH
200
B
HOH
205
3
HOH
HOH
205
B
HOH
216
3
HOH
HOH
216
B
HOH
220
3
HOH
HOH
220
B
HOH
224
3
HOH
HOH
224
B
HOH
233
3
HOH
HOH
233
B
HOH
237
3
HOH
HOH
237
B
HOH
239
3
HOH
HOH
239
B
HOH
240
3
HOH
HOH
240
B
HOH
242
3
HOH
HOH
242
B
HOH
244
3
HOH
HOH
244
B
HOH
245
3
HOH
HOH
245
B
HOH
252
3
HOH
HOH
252
B
HOH
107
3
HOH
HOH
107
C
HOH
108
3
HOH
HOH
108
C
HOH
110
3
HOH
HOH
110
C
HOH
113
3
HOH
HOH
113
C
HOH
116
3
HOH
HOH
116
C
HOH
119
3
HOH
HOH
119
C
HOH
120
3
HOH
HOH
120
C
HOH
121
3
HOH
HOH
121
C
HOH
124
3
HOH
HOH
124
C
HOH
126
3
HOH
HOH
126
C
HOH
128
3
HOH
HOH
128
C
HOH
130
3
HOH
HOH
130
C
HOH
136
3
HOH
HOH
136
C
HOH
138
3
HOH
HOH
138
C
HOH
140
3
HOH
HOH
140
C
HOH
141
3
HOH
HOH
141
C
HOH
143
3
HOH
HOH
143
C
HOH
145
3
HOH
HOH
145
C
HOH
147
3
HOH
HOH
147
C
HOH
149
3
HOH
HOH
149
C
HOH
152
3
HOH
HOH
152
C
HOH
155
3
HOH
HOH
155
C
HOH
156
3
HOH
HOH
156
C
HOH
160
3
HOH
HOH
160
C
HOH
167
3
HOH
HOH
167
C
HOH
168
3
HOH
HOH
168
C
HOH
170
3
HOH
HOH
170
C
HOH
171
3
HOH
HOH
171
C
HOH
172
3
HOH
HOH
172
C
HOH
177
3
HOH
HOH
177
C
HOH
181
3
HOH
HOH
181
C
HOH
188
3
HOH
HOH
188
C
HOH
191
3
HOH
HOH
191
C
HOH
192
3
HOH
HOH
192
C
HOH
197
3
HOH
HOH
197
C
HOH
199
3
HOH
HOH
199
C
HOH
204
3
HOH
HOH
204
C
HOH
206
3
HOH
HOH
206
C
HOH
208
3
HOH
HOH
208
C
HOH
212
3
HOH
HOH
212
C
HOH
218
3
HOH
HOH
218
C
HOH
219
3
HOH
HOH
219
C
HOH
222
3
HOH
HOH
222
C
HOH
223
3
HOH
HOH
223
C
HOH
225
3
HOH
HOH
225
C
HOH
249
3
HOH
HOH
249
C
HOH
250
3
HOH
HOH
250
C
HOH
112
3
HOH
HOH
112
D
HOH
115
3
HOH
HOH
115
D
HOH
117
3
HOH
HOH
117
D
HOH
125
3
HOH
HOH
125
D
HOH
129
3
HOH
HOH
129
D
HOH
131
3
HOH
HOH
131
D
HOH
132
3
HOH
HOH
132
D
HOH
133
3
HOH
HOH
133
D
HOH
135
3
HOH
HOH
135
D
HOH
137
3
HOH
HOH
137
D
HOH
139
3
HOH
HOH
139
D
HOH
142
3
HOH
HOH
142
D
HOH
161
3
HOH
HOH
161
D
HOH
166
3
HOH
HOH
166
D
HOH
173
3
HOH
HOH
173
D
HOH
176
3
HOH
HOH
176
D
HOH
178
3
HOH
HOH
178
D
HOH
182
3
HOH
HOH
182
D
HOH
183
3
HOH
HOH
183
D
HOH
185
3
HOH
HOH
185
D
HOH
189
3
HOH
HOH
189
D
HOH
190
3
HOH
HOH
190
D
HOH
193
3
HOH
HOH
193
D
HOH
194
3
HOH
HOH
194
D
HOH
198
3
HOH
HOH
198
D
HOH
201
3
HOH
HOH
201
D
HOH
203
3
HOH
HOH
203
D
HOH
207
3
HOH
HOH
207
D
HOH
215
3
HOH
HOH
215
D
HOH
221
3
HOH
HOH
221
D
HOH
227
3
HOH
HOH
227
D
HOH
232
3
HOH
HOH
232
D
HOH
235
3
HOH
HOH
235
D
HOH
236
3
HOH
HOH
236
D
HOH
238
3
HOH
HOH
238
D
HOH
241
3
HOH
HOH
241
D
HOH
243
3
HOH
HOH
243
D
G
1
n
1
G
1
A
U
2
n
2
U
2
A
G
3
n
3
G
3
A
U
4
n
4
U
4
A
C
5
n
5
C
5
A
G
6
n
6
G
6
A
BRO
7
n
7
CBR
7
A
A
8
n
8
A
8
A
C
9
n
9
C
9
A
G
10
n
1
G
10
B
U
11
n
2
U
11
B
G
12
n
3
G
12
B
U
13
n
4
U
13
B
C
14
n
5
C
14
B
G
15
n
6
G
15
B
BRO
16
n
7
CBR
16
B
A
17
n
8
A
17
B
C
18
n
9
C
18
B
G
19
n
1
G
19
C
U
20
n
2
U
20
C
G
21
n
3
G
21
C
U
22
n
4
U
22
C
C
23
n
5
C
23
C
G
24
n
6
G
24
C
BRO
25
n
7
CBR
25
C
A
26
n
8
A
26
C
C
27
n
9
C
27
C
G
28
n
1
G
28
D
U
29
n
2
U
29
D
G
30
n
3
G
30
D
U
31
n
4
U
31
D
C
32
n
5
C
32
D
G
33
n
6
G
33
D
BRO
34
n
7
CBR
34
D
A
35
n
8
A
35
D
C
36
n
9
C
36
D
author_defined_assembly
2
dimeric
author_defined_assembly
2
dimeric
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
A
C
5
A
OP1
C
5
1_555
93.3
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
A
HOH
179
I
O
HOH
1_555
73.0
A
C
5
A
OP1
C
5
1_555
A
CA
103
A
E
CA
CA
1_555
A
HOH
179
I
O
HOH
1_555
81.1
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
77.5
A
C
5
A
OP1
C
5
1_555
A
CA
103
A
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
168.6
A
HOH
179
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
89.8
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
76.0
A
C
5
A
OP1
C
5
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
102.5
A
HOH
179
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
149.0
A
HOH
234
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
82.0
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
131.1
A
C
5
A
OP1
C
5
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
75.6
A
HOH
179
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
146.7
A
HOH
234
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
115.5
B
C
18
B
O2'
C
9
6_565
A
CA
103
A
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
61.0
A
U
4
A
OP2
U
4
1_555
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
168.9
A
C
5
A
OP1
C
5
1_555
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
79.3
A
HOH
179
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
97.5
A
HOH
234
I
O
HOH
1_555
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
108.8
B
C
18
B
O2'
C
9
6_565
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
113.5
B
C
18
B
O3'
C
9
6_565
A
CA
103
A
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
55.2
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
A
HOH
179
I
O
HOH
1_555
58.3
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
107.0
A
HOH
179
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
65.2
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
81.4
A
HOH
179
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
101.4
A
HOH
234
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
68.3
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
81.5
A
HOH
179
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
139.6
A
HOH
234
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
131.6
B
C
18
B
O2'
C
9
6_565
A
CA
103
B
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
66.1
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
159.2
A
HOH
179
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
141.1
A
HOH
234
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
91.8
B
C
18
B
O2'
C
9
6_565
A
CA
103
B
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
97.8
B
C
18
B
O3'
C
9
6_565
A
CA
103
B
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
79.2
A
C
5
A
OP1
C
5
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
94.1
A
HOH
179
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
101.6
A
HOH
234
I
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
140.5
B
C
18
B
O2'
C
9
6_565
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
149.6
B
C
18
B
O3'
C
9
6_565
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
83.5
D
HOH
182
L
O
HOH
1_555
A
CA
103
B
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
76.0
A
C
9
A
O2'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
A
C
9
A
O3'
C
9
6_575
61.3
A
C
9
A
O2'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
U
13
B
OP2
U
4
1_555
86.4
A
C
9
A
O3'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
U
13
B
OP2
U
4
1_555
140.9
A
C
9
A
O2'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
106.1
A
C
9
A
O3'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
73.7
B
U
13
B
OP2
U
4
1_555
B
CA
104
B
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
97.2
A
C
9
A
O2'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
94.2
A
C
9
A
O3'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
123.0
B
U
13
B
OP2
U
4
1_555
B
CA
104
B
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
77.7
B
C
14
B
OP1
C
5
1_555
B
CA
104
B
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
158.8
A
C
9
A
O2'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
141.6
A
C
9
A
O3'
C
9
6_575
B
CA
104
B
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
155.5
B
U
13
B
OP2
U
4
1_555
B
CA
104
B
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
56.0
B
C
14
B
OP1
C
5
1_555
B
CA
104
B
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
87.9
B
HOH
163
J
O
HOH
1_555
B
CA
104
B
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
72.0
A
C
9
A
O3'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
A
C
9
A
O2'
C
9
6_575
62.8
A
C
9
A
O3'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
A
HOH
196
I
O
HOH
6_575
85.9
A
C
9
A
O2'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
A
HOH
196
I
O
HOH
6_575
93.4
A
C
9
A
O3'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
81.9
A
C
9
A
O2'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
77.0
A
HOH
196
I
O
HOH
6_575
B
CA
104
A
F
CA
CA
1_555
B
C
14
B
OP1
C
5
1_555
167.0
A
C
9
A
O3'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
129.2
A
C
9
A
O2'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
67.8
A
HOH
196
I
O
HOH
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
86.2
B
C
14
B
OP1
C
5
1_555
B
CA
104
A
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
98.1
A
C
9
A
O3'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
78.5
A
C
9
A
O2'
C
9
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
139.5
A
HOH
196
I
O
HOH
6_575
B
CA
104
A
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
95.2
B
C
14
B
OP1
C
5
1_555
B
CA
104
A
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
86.7
B
HOH
163
J
O
HOH
1_555
B
CA
104
A
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
152.3
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
C
U
22
C
OP2
U
4
1_555
154.1
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
C
C
23
C
OP1
C
5
1_555
97.2
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
C
C
23
C
OP1
C
5
1_555
86.4
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
C
HOH
110
K
O
HOH
1_555
84.0
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
C
HOH
110
K
O
HOH
1_555
85.5
C
C
23
C
OP1
C
5
1_555
C
CA
101
G
CA
CA
1_555
C
HOH
110
K
O
HOH
1_555
163.6
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
C
HOH
141
K
O
HOH
1_555
78.6
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
C
HOH
141
K
O
HOH
1_555
77.2
C
C
23
C
OP1
C
5
1_555
C
CA
101
G
CA
CA
1_555
C
HOH
141
K
O
HOH
1_555
77.8
C
HOH
110
K
O
HOH
1_555
C
CA
101
G
CA
CA
1_555
C
HOH
141
K
O
HOH
1_555
86.5
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
77.4
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
128.1
C
C
23
C
OP1
C
5
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
77.5
C
HOH
110
K
O
HOH
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
118.5
C
HOH
141
K
O
HOH
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
142.8
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
128.7
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
74.2
C
C
23
C
OP1
C
5
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
103.9
C
HOH
110
K
O
HOH
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
87.6
C
HOH
141
K
O
HOH
1_555
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
151.2
D
C
36
D
O3'
C
9
5_756
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
62.9
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
C
C
27
C
O2'
C
9
5_656
63.2
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
C
HOH
119
K
O
HOH
5_656
118.3
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
C
HOH
119
K
O
HOH
5_656
85.2
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
U
31
D
OP2
U
4
1_555
124.0
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
U
31
D
OP2
U
4
1_555
71.8
C
HOH
119
K
O
HOH
5_656
D
CA
102
H
CA
CA
1_555
D
U
31
D
OP2
U
4
1_555
87.8
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
C
32
D
OP1
C
5
1_555
77.2
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
C
32
D
OP1
C
5
1_555
106.5
C
HOH
119
K
O
HOH
5_656
D
CA
102
H
CA
CA
1_555
D
C
32
D
OP1
C
5
1_555
164.1
D
U
31
D
OP2
U
4
1_555
D
CA
102
H
CA
CA
1_555
D
C
32
D
OP1
C
5
1_555
85.8
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
77.0
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
127.9
C
HOH
119
K
O
HOH
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
85.6
D
U
31
D
OP2
U
4
1_555
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
158.4
D
C
32
D
OP1
C
5
1_555
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
95.1
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
143.3
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
151.1
C
HOH
119
K
O
HOH
5_656
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
86.6
D
U
31
D
OP2
U
4
1_555
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
80.2
D
C
32
D
OP1
C
5
1_555
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
77.9
D
HOH
132
L
O
HOH
1_555
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
78.9
A
CBR
7
A
CBR
7
DC
B
CBR
16
B
CBR
7
DC
C
CBR
25
C
CBR
7
DC
D
CBR
34
D
CBR
7
DC
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
O
O
HOH
HOH
158
220
2.19
1
A
G
1
0.056
SIDE CHAIN
0.234
0.212
1.4
20
3228
33271
97.8
1
2
MAD
1.4
20
146
904
10
748
0
1.4
20
1J9H
33934
0.083
1
22
9
99.3
data scaling
SCALEPACK
phasing
MLPHARE
refinement
CNS
1.0
Crystal Structure of an RNA Duplex with Uridine Bulges
1
N
N
1
N
N
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
covale
1.603
both
A
G
6
A
O3'
G
6
1_555
A
CBR
7
A
P
CBR
7
1_555
covale
1.625
both
A
CBR
7
A
O3'
CBR
7
1_555
A
A
8
A
P
A
8
1_555
covale
1.617
both
B
G
15
B
O3'
G
6
1_555
B
CBR
16
B
P
CBR
7
1_555
covale
1.600
both
B
CBR
16
B
O3'
CBR
7
1_555
B
A
17
B
P
A
8
1_555
covale
1.610
both
C
G
24
C
O3'
G
6
1_555
C
CBR
25
C
P
CBR
7
1_555
covale
1.614
both
C
CBR
25
C
O3'
CBR
7
1_555
C
A
26
C
P
A
8
1_555
covale
1.604
both
D
G
33
D
O3'
G
6
1_555
D
CBR
34
D
P
CBR
7
1_555
covale
1.615
both
D
CBR
34
D
O3'
CBR
7
1_555
D
A
35
D
P
A
8
1_555
metalc
2.520
A
A
U
4
A
OP2
U
4
1_555
A
CA
103
E
CA
CA
1_555
metalc
2.010
A
A
C
5
A
OP1
C
5
1_555
A
CA
103
E
CA
CA
1_555
metalc
2.551
B
A
C
5
A
OP1
C
5
1_555
A
CA
103
E
CA
CA
1_555
metalc
2.268
B
A
C
9
A
O2'
C
9
6_575
B
CA
104
F
CA
CA
1_555
metalc
3.003
B
A
C
9
A
O3'
C
9
6_575
B
CA
104
F
CA
CA
1_555
metalc
2.253
A
A
C
9
A
O3'
C
9
6_575
B
CA
104
F
CA
CA
1_555
metalc
2.927
A
A
C
9
A
O2'
C
9
6_575
B
CA
104
F
CA
CA
1_555
metalc
2.454
A
A
CA
103
E
CA
CA
1_555
A
HOH
179
I
O
HOH
1_555
metalc
3.297
B
A
CA
103
E
CA
CA
1_555
A
HOH
179
I
O
HOH
1_555
metalc
2.019
A
A
CA
103
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
metalc
2.435
B
A
CA
103
E
CA
CA
1_555
A
HOH
234
I
O
HOH
1_555
metalc
2.420
A
A
CA
103
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
metalc
2.867
A
A
CA
103
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
metalc
2.757
B
A
CA
103
E
CA
CA
1_555
B
C
18
B
O2'
C
9
6_565
metalc
2.120
B
A
CA
103
E
CA
CA
1_555
B
C
18
B
O3'
C
9
6_565
metalc
2.635
B
A
CA
103
E
CA
CA
1_555
D
HOH
182
L
O
HOH
1_555
metalc
2.086
B
A
CA
103
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
metalc
3.153
A
A
CA
103
E
CA
CA
1_555
D
HOH
238
L
O
HOH
1_555
metalc
2.317
A
A
HOH
196
I
O
HOH
6_575
B
CA
104
F
CA
CA
1_555
metalc
2.500
B
B
U
13
B
OP2
U
4
1_555
B
CA
104
F
CA
CA
1_555
metalc
2.444
A
B
C
14
B
OP1
C
5
1_555
B
CA
104
F
CA
CA
1_555
metalc
1.934
B
B
C
14
B
OP1
C
5
1_555
B
CA
104
F
CA
CA
1_555
metalc
2.562
A
B
CA
104
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
metalc
1.915
B
B
CA
104
F
CA
CA
1_555
B
HOH
163
J
O
HOH
1_555
metalc
3.356
B
B
CA
104
F
CA
CA
1_555
B
HOH
237
J
O
HOH
1_555
metalc
2.256
A
B
CA
104
F
CA
CA
1_555
B
HOH
252
J
O
HOH
1_555
metalc
2.479
B
HOH
118
J
O
HOH
2_765
C
CA
101
G
CA
CA
1_555
metalc
2.298
C
U
22
C
OP2
U
4
1_555
C
CA
101
G
CA
CA
1_555
metalc
2.332
C
C
23
C
OP1
C
5
1_555
C
CA
101
G
CA
CA
1_555
metalc
2.524
C
C
27
C
O3'
C
9
5_656
D
CA
102
H
CA
CA
1_555
metalc
2.423
C
C
27
C
O2'
C
9
5_656
D
CA
102
H
CA
CA
1_555
metalc
2.285
C
CA
101
G
CA
CA
1_555
C
HOH
110
K
O
HOH
1_555
metalc
2.427
C
CA
101
G
CA
CA
1_555
C
HOH
141
K
O
HOH
1_555
metalc
2.527
C
CA
101
G
CA
CA
1_555
D
C
36
D
O3'
C
9
5_756
metalc
2.393
C
CA
101
G
CA
CA
1_555
D
C
36
D
O2'
C
9
5_756
metalc
2.267
C
HOH
119
K
O
HOH
5_656
D
CA
102
H
CA
CA
1_555
metalc
2.326
D
U
31
D
OP2
U
4
1_555
D
CA
102
H
CA
CA
1_555
metalc
2.342
D
C
32
D
OP1
C
5
1_555
D
CA
102
H
CA
CA
1_555
metalc
2.468
D
CA
102
H
CA
CA
1_555
D
HOH
132
L
O
HOH
1_555
metalc
2.472
D
CA
102
H
CA
CA
1_555
D
HOH
139
L
O
HOH
1_555
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
B
C
18
B
N3
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
B
C
18
B
O2
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
B
C
18
B
N4
C
9
1_555
hydrog
WATSON-CRICK
A
U
2
A
N3
U
2
1_555
B
A
17
B
N1
A
8
1_555
hydrog
WATSON-CRICK
A
U
2
A
O4
U
2
1_555
B
A
17
B
N6
A
8
1_555
hydrog
WATSON-CRICK
A
G
3
A
N1
G
3
1_555
B
CBR
16
B
N3
CBR
7
1_555
hydrog
WATSON-CRICK
A
G
3
A
N2
G
3
1_555
B
CBR
16
B
O2
CBR
7
1_555
hydrog
WATSON-CRICK
A
G
3
A
O6
G
3
1_555
B
CBR
16
B
N4
CBR
7
1_555
hydrog
U-A PAIR
A
U
4
A
N3
U
4
1_555
B
A
17
B
N3
A
8
1_555
hydrog
WATSON-CRICK
A
C
5
A
N3
C
5
1_555
B
G
15
B
N1
G
6
1_555
hydrog
WATSON-CRICK
A
C
5
A
N4
C
5
1_555
B
G
15
B
O6
G
6
1_555
hydrog
WATSON-CRICK
A
C
5
A
O2
C
5
1_555
B
G
15
B
N2
G
6
1_555
hydrog
WATSON-CRICK
A
G
6
A
N1
G
6
1_555
B
C
14
B
N3
C
5
1_555
hydrog
WATSON-CRICK
A
G
6
A
N2
G
6
1_555
B
C
14
B
O2
C
5
1_555
hydrog
WATSON-CRICK
A
G
6
A
O6
G
6
1_555
B
C
14
B
N4
C
5
1_555
hydrog
WATSON-CRICK
A
CBR
7
A
N3
CBR
7
1_555
B
G
12
B
N1
G
3
1_555
hydrog
WATSON-CRICK
A
CBR
7
A
N4
CBR
7
1_555
B
G
12
B
O6
G
3
1_555
hydrog
WATSON-CRICK
A
CBR
7
A
O2
CBR
7
1_555
B
G
12
B
N2
G
3
1_555
hydrog
WATSON-CRICK
A
A
8
A
N1
A
8
1_555
B
U
11
B
N3
U
2
1_555
hydrog
WATSON-CRICK
A
A
8
A
N6
A
8
1_555
B
U
11
B
O4
U
2
1_555
hydrog
A-U PAIR
A
A
8
A
N3
A
8
1_555
B
U
13
B
N3
U
4
1_555
hydrog
WATSON-CRICK
A
C
9
A
N3
C
9
1_555
B
G
10
B
N1
G
1
1_555
hydrog
WATSON-CRICK
A
C
9
A
N4
C
9
1_555
B
G
10
B
O6
G
1
1_555
hydrog
WATSON-CRICK
A
C
9
A
O2
C
9
1_555
B
G
10
B
N2
G
1
1_555
hydrog
WATSON-CRICK
C
G
19
C
N1
G
1
1_555
D
C
36
D
N3
C
9
1_555
hydrog
WATSON-CRICK
C
G
19
C
N2
G
1
1_555
D
C
36
D
O2
C
9
1_555
hydrog
WATSON-CRICK
C
G
19
C
O6
G
1
1_555
D
C
36
D
N4
C
9
1_555
hydrog
WATSON-CRICK
C
U
20
C
N3
U
2
1_555
D
A
35
D
N1
A
8
1_555
hydrog
WATSON-CRICK
C
U
20
C
O4
U
2
1_555
D
A
35
D
N6
A
8
1_555
hydrog
WATSON-CRICK
C
G
21
C
N1
G
3
1_555
D
CBR
34
D
N3
CBR
7
1_555
hydrog
WATSON-CRICK
C
G
21
C
N2
G
3
1_555
D
CBR
34
D
O2
CBR
7
1_555
hydrog
WATSON-CRICK
C
G
21
C
O6
G
3
1_555
D
CBR
34
D
N4
CBR
7
1_555
hydrog
U-A PAIR
C
U
22
C
N3
U
4
1_555
D
A
35
D
N3
A
8
1_555
hydrog
WATSON-CRICK
C
C
23
C
N3
C
5
1_555
D
G
33
D
N1
G
6
1_555
hydrog
WATSON-CRICK
C
C
23
C
N4
C
5
1_555
D
G
33
D
O6
G
6
1_555
hydrog
WATSON-CRICK
C
C
23
C
O2
C
5
1_555
D
G
33
D
N2
G
6
1_555
hydrog
WATSON-CRICK
C
G
24
C
N1
G
6
1_555
D
C
32
D
N3
C
5
1_555
hydrog
WATSON-CRICK
C
G
24
C
N2
G
6
1_555
D
C
32
D
O2
C
5
1_555
hydrog
WATSON-CRICK
C
G
24
C
O6
G
6
1_555
D
C
32
D
N4
C
5
1_555
hydrog
WATSON-CRICK
C
CBR
25
C
N3
CBR
7
1_555
D
G
30
D
N1
G
3
1_555
hydrog
WATSON-CRICK
C
CBR
25
C
N4
CBR
7
1_555
D
G
30
D
O6
G
3
1_555
hydrog
WATSON-CRICK
C
CBR
25
C
O2
CBR
7
1_555
D
G
30
D
N2
G
3
1_555
hydrog
WATSON-CRICK
C
A
26
C
N1
A
8
1_555
D
U
29
D
N3
U
2
1_555
hydrog
WATSON-CRICK
C
A
26
C
N6
A
8
1_555
D
U
29
D
O4
U
2
1_555
hydrog
A-U PAIR
C
A
26
C
N3
A
8
1_555
D
U
31
D
N3
U
4
1_555
hydrog
WATSON-CRICK
C
C
27
C
N3
C
9
1_555
D
G
28
D
N1
G
1
1_555
hydrog
WATSON-CRICK
C
C
27
C
N4
C
9
1_555
D
G
28
D
O6
G
1
1_555
hydrog
WATSON-CRICK
C
C
27
C
O2
C
9
1_555
D
G
28
D
N2
G
1
1_555
RNA
Uridine Bulge, RNA duplex, A-form, Kink, Metal binding, RNA
1J9H
PDB
1
1J9H
1
9
1J9H
1
9
1J9H
A
1
1
9
10
18
1J9H
10
18
1J9H
B
1
1
9
19
27
1J9H
19
27
1J9H
C
1
1
9
28
36
1J9H
28
36
1J9H
D
1
1
9
BINDING SITE FOR RESIDUE CA C 101
C
CA
101
Software
6
BINDING SITE FOR RESIDUE CA D 102
D
CA
102
Software
6
BINDING SITE FOR RESIDUE CA A 103
A
CA
103
Software
7
BINDING SITE FOR RESIDUE CA B 104
B
CA
104
Software
6
B
HOH
118
J
HOH
6
2_765
C
U
22
C
U
4
6
1_555
C
C
23
C
C
5
6
1_555
C
HOH
110
K
HOH
6
1_555
C
HOH
141
K
HOH
6
1_555
D
C
36
D
C
9
6
5_756
C
C
27
C
C
9
6
5_656
C
HOH
119
K
HOH
6
5_656
D
U
31
D
U
4
6
1_555
D
C
32
D
C
5
6
1_555
D
HOH
132
L
HOH
6
1_555
D
HOH
139
L
HOH
6
1_555
A
U
4
A
U
4
7
1_555
A
C
5
A
C
5
7
1_555
A
HOH
179
I
HOH
7
1_555
A
HOH
234
I
HOH
7
1_555
B
C
18
B
C
9
7
6_565
D
HOH
182
L
HOH
7
1_555
D
HOH
238
L
HOH
7
1_555
A
C
9
A
C
9
6
6_575
A
HOH
196
I
HOH
6
6_575
B
U
13
B
U
4
6
1_555
B
C
14
B
C
5
6
1_555
B
HOH
163
J
HOH
6
1_555
B
HOH
252
J
HOH
6
1_555
91
P 41 2 2