0.018084
0.010441
0.000000
0.000000
0.020882
0.000000
0.000000
0.000000
0.006948
0.00000
0.00000
0.00000
Baugh, C.
Grate, D.
Wilson, C.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90
90
120
55.297
55.297
143.92
C9 H12 Br N2 O9 P
403.077
n
5-BROMO-URIDINE-5'-MONOPHOSPHATE
RNA linking
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
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
H2 O
18.015
WATER
non-polymer
C23 H23 N2 O 1
343.442
N,N'-TETRAMETHYL-ROSAMINE
(6-DIMETHYLAMINO-9-PHENYL-XANTHEN-3-YLIDENE)-DIMETHYL-AMMONIUM
non-polymer
Sr 2
87.620
STRONTIUM ION
non-polymer
N
1
N
P
N
2
N
O
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
N
14
N
N
N
15
N
C
N
16
N
O
N
17
N
N
N
18
N
C
N
19
N
O
N
20
N
C
N
21
N
C
N
22
N
BR
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
H
N
35
N
O
N
36
N
P
N
37
N
O
N
38
N
O
N
39
N
O
N
40
N
C
N
41
R
C
N
42
N
O
N
43
S
C
N
44
N
O
N
45
R
C
N
46
N
O
N
47
R
C
Y
48
N
N
Y
49
N
C
Y
50
N
N
Y
51
N
C
Y
52
N
C
N
53
N
N
Y
54
N
N
Y
55
N
C
Y
56
N
N
Y
57
N
C
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
O
N
73
N
P
N
74
N
O
N
75
N
O
N
76
N
O
N
77
N
C
N
78
R
C
N
79
N
O
N
80
S
C
N
81
N
O
N
82
R
C
N
83
N
O
N
84
R
C
N
85
N
N
N
86
N
C
N
87
N
O
N
88
N
N
N
89
N
C
N
90
N
N
N
91
N
C
N
92
N
C
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
H
N
107
N
O
N
108
N
P
N
109
N
O
N
110
N
O
N
111
N
O
N
112
N
C
N
113
R
C
N
114
N
O
N
115
S
C
N
116
N
O
N
117
R
C
N
118
N
O
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
H
N
147
N
H
Y
148
N
C
Y
149
N
C
Y
150
N
C
Y
151
N
O
Y
152
N
C
Y
153
N
C
Y
154
N
C
Y
155
N
C
Y
156
N
C
Y
157
N
C
Y
158
N
C
Y
159
N
C
Y
160
N
C
Y
161
N
C
Y
162
N
C
Y
163
N
C
Y
164
N
C
Y
165
N
C
Y
166
N
C
Y
167
N
C
N
168
N
N
N
169
N
C
N
170
N
C
N
171
N
N
N
172
N
C
N
173
N
C
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
H
N
185
N
H
N
186
N
H
N
187
N
H
N
188
N
H
N
189
N
H
N
190
N
H
N
191
N
H
N
192
N
H
N
193
N
H
N
194
N
H
N
195
N
H
N
196
N
H
N
197
N
SR
N
1
N
doub
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
doub
N
28
N
sing
N
29
N
sing
N
30
N
sing
N
31
N
doub
N
32
N
sing
N
33
N
doub
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
sing
N
38
N
doub
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
Y
60
N
sing
Y
61
N
sing
Y
62
N
doub
N
63
N
sing
Y
64
N
sing
Y
65
N
sing
Y
66
N
doub
N
67
N
sing
Y
68
N
doub
N
69
N
sing
N
70
N
sing
Y
71
N
sing
Y
72
N
doub
N
73
N
sing
Y
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
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
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
Y
153
N
sing
Y
154
N
sing
N
155
N
doub
Y
156
N
doub
N
157
N
sing
Y
158
N
sing
Y
159
N
sing
Y
160
N
sing
Y
161
N
sing
Y
162
N
doub
Y
163
N
doub
N
164
N
sing
Y
165
N
sing
N
166
N
sing
Y
167
N
doub
N
168
N
sing
Y
169
N
sing
N
170
N
sing
Y
171
N
sing
Y
172
N
doub
Y
173
N
sing
Y
174
N
sing
Y
175
N
doub
N
176
N
sing
N
177
N
sing
Y
178
N
doub
Y
179
N
sing
Y
180
N
sing
N
181
N
sing
Y
182
N
doub
N
183
N
sing
Y
184
N
sing
N
185
N
sing
Y
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
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
301
117
128
10.1006/jmbi.2000.3951
10926496
2.8 A crystal structure of the malachite green aptamer.
2000
10.2210/pdb1f1t/pdb
pdb_00001f1t
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
1999-08-25
MARRESEARCH
MAD
M
x-ray
1
0.92070
1.0
0.92090
1.0
0.90830
1.0
1.0000
1.0
5.0.2
ALS
0.92070, 0.92090, 0.90830, 1.0000
SYNCHROTRON
ALS BEAMLINE 5.0.2
ALL URIDINES ARE 5-BROMO-URIDINE
12711.902
MALACHITE GREEN APTAMER RNA
1
syn
polymer
87.620
STRONTIUM ION
8
syn
non-polymer
343.442
N,N'-TETRAMETHYL-ROSAMINE
1
syn
non-polymer
18.015
water
5
nat
water
no
yes
GGA(5BU)CCCGAC(5BU)GGCGAGAGCCAGG(5BU)AACGAA(5BU)GGA(5BU)CC
GGAUCCCGACUGGCGAGAGCCAGGUAACGAAUGGAUCC
A
polyribonucleotide
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1
2.58
52.30
VAPOR DIFFUSION, HANGING DROP
4.5
CACODYLATE, MGCL2, SRCL2, KCL, SPERMINE, MPD, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
CACODYLATE
1
MGCL2
1
SRCL2
1
KCL
1
SPERMINE
1
MPD
1
MPD
2
-4.834
1
19
A
1
A
38
-6.072
A_G1:C38_A
1
-1.906
-0.785
0.159
-0.534
-1.413
1
19
A
2
A
37
3.072
A_G2:C37_A
2
-19.985
-0.659
-0.304
-0.859
7.079
1
20
A
3
A
36
1.960
A_A3:5BU36_A
3
-9.795
0.099
0.277
-0.263
11.008
1
20
A
4
A
35
-3.505
A_5BU4:A35_A
4
-2.274
-0.544
-0.276
-0.386
12.129
1
19
A
5
A
34
3.853
A_C5:G34_A
5
-12.501
-0.262
-0.396
-0.205
-0.391
1
19
A
6
A
33
3.199
A_C6:G33_A
6
-8.314
0.277
0.048
-0.017
2.167
1
19
A
7
A
29
0.367
A_C7:G29_A
7
-3.222
0.691
0.351
0.011
-2.733
1
19
A
8
A
28
-0.458
A_G8:C28_A
8
2.302
-1.097
0.101
-0.267
-4.922
1
19
A
10
A
23
-4.179
A_C10:G23_A
9
1.609
0.016
-0.135
-0.317
4.327
1
20
A
11
A
22
0.483
A_5BU11:A22_A
10
-3.682
0.392
-0.096
-0.630
2.704
1
19
A
12
A
21
4.466
A_G12:C21_A
11
-13.856
-0.015
-0.175
-0.369
1.130
1
19
A
13
A
20
10.074
A_G13:C20_A
12
-11.956
-0.182
-0.048
-0.238
-2.205
1
19
A
14
A
19
-0.746
A_C14:G19_A
13
-0.923
0.477
-0.248
0.007
9.026
A
15
A
18
-24.202
A_G15:A18_A
14
5.568
7.439
-0.028
-5.000
3.256
30.754
A
A
1
2
-7.609
A
A
38
37
3.232
-4.007
-0.136
-0.891
AA_G1G2:C37C38_AA
1
5.028
-9.549
30.090
-0.892
1.244
2.455
30.990
A
A
2
3
13.159
A
A
37
36
2.963
6.957
0.640
-1.544
AA_G2A3:5BU36C37_AA
2
-3.744
7.082
29.989
-4.019
-1.806
3.151
32.633
A
A
3
4
3.667
A
A
36
35
3.269
2.052
0.210
-1.772
AA_A35BU4:A355BU36_AA
3
4.815
-8.605
32.222
-3.506
0.452
2.403
25.417
A
A
4
5
18.274
A
A
35
34
3.331
7.910
-0.040
-2.501
AA_5BU4C5:G34A35_AA
4
-0.826
1.907
24.161
-7.732
-0.122
2.866
39.400
A
A
5
6
16.261
A
A
34
33
3.585
10.826
0.349
-2.126
AA_C5C6:G33G34_AA
5
-2.456
3.689
37.864
-4.444
-0.811
2.808
52.835
A
A
6
7
5.774
A
A
33
29
3.000
5.130
2.310
-1.226
AA_C6C7:G29G33_AA
6
-1.657
1.865
52.579
-1.673
-2.692
0.224
12.944
A
A
7
8
71.299
A
A
29
28
7.008
12.221
0.837
-2.197
AA_C7G8:C28G29_AA
7
1.248
-7.281
4.086
-32.747
-1.364
3.376
90.956
A
A
8
10
1.135
A
A
28
23
3.319
1.619
1.513
1.565
AA_G8C10:G23C28_AA
8
2.810
-1.971
90.910
1.065
-1.005
3.067
34.573
A
A
10
11
2.017
A
A
23
22
3.089
1.197
-0.516
-1.588
AA_C105BU11:A22G23_AA
9
-3.100
5.223
34.417
-2.846
0.418
2.622
30.397
A
A
11
12
17.453
A
A
22
21
3.259
9.014
-0.185
-1.652
AA_5BU11G12:C21A22_AA
10
1.885
-3.649
29.000
-4.816
0.702
2.538
30.206
A
A
12
13
18.592
A
A
21
20
3.186
9.528
0.665
-1.660
AA_G12G13:C20C21_AA
11
1.042
-2.033
28.678
-4.925
-1.087
3.092
37.196
A
A
13
14
8.698
A
A
20
19
3.366
5.522
0.368
-1.797
AA_G13C14:G19C20_AA
12
3.353
-5.282
36.650
-3.548
-0.132
2.666
49.988
A
A
14
15
7.013
A
A
19
18
2.959
5.913
-1.286
-2.130
AA_C14G15:A18G19_AA
13
1.581
-1.875
49.635
-2.891
1.621
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
2000-09-04
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_comp_id
_pdbx_struct_conn_angle.ptnr1_auth_seq_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.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_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.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_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
2000-05-19
REL
REL
SR
STRONTIUM ION
ROS
N,N'-TETRAMETHYL-ROSAMINE
HOH
water
IN VITRO T7 TRANSCRIPTION OF A LINEARIZED PLASMID TEMPLATE
sample
SR
201
2
SR
SR
201
A
SR
202
2
SR
SR
202
A
SR
203
2
SR
SR
203
A
SR
204
2
SR
SR
204
A
SR
205
2
SR
SR
205
A
SR
206
2
SR
SR
206
A
SR
208
2
SR
SR
208
A
SR
209
2
SR
SR
209
A
ROS
101
3
ROS
ROS
101
A
HOH
301
4
HOH
HOH
301
A
HOH
302
4
HOH
HOH
302
A
HOH
303
4
HOH
HOH
303
A
HOH
304
4
HOH
HOH
304
A
HOH
305
4
HOH
HOH
305
A
G
1
n
1
G
1
A
G
2
n
2
G
2
A
A
3
n
3
A
3
A
+U
4
n
4
5BU
4
A
C
5
n
5
C
5
A
C
6
n
6
C
6
A
C
7
n
7
C
7
A
G
8
n
8
G
8
A
A
9
n
9
A
9
A
C
10
n
10
C
10
A
+U
11
n
11
5BU
11
A
G
12
n
12
G
12
A
G
13
n
13
G
13
A
C
14
n
14
C
14
A
G
15
n
15
G
15
A
A
16
n
16
A
16
A
G
17
n
17
G
17
A
A
18
n
18
A
18
A
G
19
n
19
G
19
A
C
20
n
20
C
20
A
C
21
n
21
C
21
A
A
22
n
22
A
22
A
G
23
n
23
G
23
A
G
24
n
24
G
24
A
+U
25
n
25
5BU
25
A
A
26
n
26
A
26
A
A
27
n
27
A
27
A
C
28
n
28
C
28
A
G
29
n
29
G
29
A
A
30
n
30
A
30
A
A
31
n
31
A
31
A
+U
32
n
32
5BU
32
A
G
33
n
33
G
33
A
G
34
n
34
G
34
A
A
35
n
35
A
35
A
+U
36
n
36
5BU
36
A
C
37
n
37
C
37
A
C
38
n
38
C
38
A
author_defined_assembly
1
monomeric
A
A
16
A
OP1
A
16
6_434
A
SR
201
B
SR
SR
1_555
A
5BU
32
A
O2
5BU
32
1_555
74.9
A
A
16
A
OP1
A
16
6_434
A
SR
201
B
SR
SR
1_555
A
G
34
A
OP1
G
34
1_555
88.6
A
5BU
32
A
O2
5BU
32
1_555
A
SR
201
B
SR
SR
1_555
A
G
34
A
OP1
G
34
1_555
80.4
A
A
31
A
OP2
A
31
1_555
A
SR
205
F
SR
SR
1_555
A
G
33
A
OP2
G
33
1_555
93.5
A
G
33
A
OP1
G
33
1_555
A
SR
206
G
SR
SR
1_555
A
HOH
304
K
O
HOH
1_555
59.7
A
5BU
4
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
4
U
A
5BU
11
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
11
U
A
5BU
25
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
25
U
A
5BU
32
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
32
U
A
5BU
36
5-BROMO-URIDINE-5'-MONOPHOSPHATE
A
5BU
36
U
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
A
A
OP2
O
5BU
HOH
4
305
1.94
1
A
G
23
0.052
SIDE CHAIN
1
A
G
24
0.063
SIDE CHAIN
1
6.88
1.10
110.50
117.38
A
A
A
O3'
P
OP2
C
C
C
6
7
7
Y
1
9.88
1.30
114.00
123.88
A
A
A
N9
C1'
C2'
G
G
G
8
8
8
N
1
-7.69
1.10
112.00
104.31
A
A
A
N9
C1'
C2'
G
G
G
15
15
15
N
1
8.34
1.30
114.00
122.34
A
A
A
N9
C1'
C2'
G
G
G
24
24
24
N
1
10.62
1.30
114.00
124.62
A
A
A
N9
C1'
C2'
G
G
G
29
29
29
N
0.2822
0.2609
0.2609
2.8
9.0
3188
3188
RANDOM
1
THROUGHOUT
0
2.8
9.0
5
860
39
816
0
0.013
1.96
2.8
20.0
1F1T
3188
3188
0.057
1
40.59
40.3
99.7
phasing
SHARP
refinement
CNS
0.9
data reduction
DENZO
data scaling
SCALEPACK
CRYSTAL STRUCTURE OF THE MALACHITE GREEN APTAMER COMPLEXED WITH TETRAMETHYL-ROSAMINE
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
2
N
N
3
N
N
4
N
N
covale
1.600
both
A
A
3
A
O3'
A
3
1_555
A
5BU
4
A
P
5BU
4
1_555
covale
1.614
both
A
5BU
4
A
O3'
5BU
4
1_555
A
C
5
A
P
C
5
1_555
covale
1.604
both
A
C
10
A
O3'
C
10
1_555
A
5BU
11
A
P
5BU
11
1_555
covale
1.608
both
A
5BU
11
A
O3'
5BU
11
1_555
A
G
12
A
P
G
12
1_555
covale
1.657
both
A
G
24
A
O3'
G
24
1_555
A
5BU
25
A
P
5BU
25
1_555
covale
1.602
both
A
5BU
25
A
O3'
5BU
25
1_555
A
A
26
A
P
A
26
1_555
covale
1.586
both
A
A
31
A
O3'
A
31
1_555
A
5BU
32
A
P
5BU
32
1_555
covale
1.609
both
A
5BU
32
A
O3'
5BU
32
1_555
A
G
33
A
P
G
33
1_555
covale
1.592
both
A
A
35
A
O3'
A
35
1_555
A
5BU
36
A
P
5BU
36
1_555
covale
1.601
both
A
5BU
36
A
O3'
5BU
36
1_555
A
C
37
A
P
C
37
1_555
metalc
2.859
A
A
16
A
OP1
A
16
6_434
A
SR
201
B
SR
SR
1_555
metalc
3.204
A
A
31
A
OP2
A
31
1_555
A
SR
205
F
SR
SR
1_555
metalc
2.774
A
5BU
32
A
O2
5BU
32
1_555
A
SR
201
B
SR
SR
1_555
metalc
3.152
A
G
33
A
OP2
G
33
1_555
A
SR
205
F
SR
SR
1_555
metalc
2.617
A
G
33
A
OP1
G
33
1_555
A
SR
206
G
SR
SR
1_555
metalc
2.635
A
G
34
A
OP1
G
34
1_555
A
SR
201
B
SR
SR
1_555
metalc
2.722
A
SR
206
G
SR
SR
1_555
A
HOH
304
K
O
HOH
1_555
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
A
C
38
A
N3
C
38
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
A
C
38
A
O2
C
38
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
A
C
38
A
N4
C
38
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
A
C
37
A
N3
C
37
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
A
C
37
A
O2
C
37
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
A
C
37
A
N4
C
37
1_555
hydrog
WATSON-CRICK
A
A
3
A
N1
A
3
1_555
A
5BU
36
A
N3
5BU
36
1_555
hydrog
WATSON-CRICK
A
A
3
A
N6
A
3
1_555
A
5BU
36
A
O4
5BU
36
1_555
hydrog
WATSON-CRICK
A
5BU
4
A
N3
5BU
4
1_555
A
A
35
A
N1
A
35
1_555
hydrog
WATSON-CRICK
A
5BU
4
A
O4
5BU
4
1_555
A
A
35
A
N6
A
35
1_555
hydrog
WATSON-CRICK
A
C
5
A
N3
C
5
1_555
A
G
34
A
N1
G
34
1_555
hydrog
WATSON-CRICK
A
C
5
A
N4
C
5
1_555
A
G
34
A
O6
G
34
1_555
hydrog
WATSON-CRICK
A
C
5
A
O2
C
5
1_555
A
G
34
A
N2
G
34
1_555
hydrog
WATSON-CRICK
A
C
6
A
N3
C
6
1_555
A
G
33
A
N1
G
33
1_555
hydrog
WATSON-CRICK
A
C
6
A
N4
C
6
1_555
A
G
33
A
O6
G
33
1_555
hydrog
WATSON-CRICK
A
C
6
A
O2
C
6
1_555
A
G
33
A
N2
G
33
1_555
hydrog
WATSON-CRICK
A
C
7
A
N3
C
7
1_555
A
G
29
A
N1
G
29
1_555
hydrog
WATSON-CRICK
A
C
7
A
N4
C
7
1_555
A
G
29
A
O6
G
29
1_555
hydrog
WATSON-CRICK
A
C
7
A
O2
C
7
1_555
A
G
29
A
N2
G
29
1_555
hydrog
WATSON-CRICK
A
G
8
A
N1
G
8
1_555
A
C
28
A
N3
C
28
1_555
hydrog
WATSON-CRICK
A
G
8
A
N2
G
8
1_555
A
C
28
A
O2
C
28
1_555
hydrog
WATSON-CRICK
A
G
8
A
O6
G
8
1_555
A
C
28
A
N4
C
28
1_555
hydrog
WATSON-CRICK
A
C
10
A
N3
C
10
1_555
A
G
23
A
N1
G
23
1_555
hydrog
WATSON-CRICK
A
C
10
A
N4
C
10
1_555
A
G
23
A
O6
G
23
1_555
hydrog
WATSON-CRICK
A
C
10
A
O2
C
10
1_555
A
G
23
A
N2
G
23
1_555
hydrog
WATSON-CRICK
A
5BU
11
A
N3
5BU
11
1_555
A
A
22
A
N1
A
22
1_555
hydrog
WATSON-CRICK
A
5BU
11
A
O4
5BU
11
1_555
A
A
22
A
N6
A
22
1_555
hydrog
5BU-A PAIR
A
5BU
11
A
O2
5BU
11
1_555
A
A
26
A
N6
A
26
1_555
hydrog
WATSON-CRICK
A
G
12
A
N1
G
12
1_555
A
C
21
A
N3
C
21
1_555
hydrog
WATSON-CRICK
A
G
12
A
N2
G
12
1_555
A
C
21
A
O2
C
21
1_555
hydrog
WATSON-CRICK
A
G
12
A
O6
G
12
1_555
A
C
21
A
N4
C
21
1_555
hydrog
WATSON-CRICK
A
G
13
A
N1
G
13
1_555
A
C
20
A
N3
C
20
1_555
hydrog
WATSON-CRICK
A
G
13
A
N2
G
13
1_555
A
C
20
A
O2
C
20
1_555
hydrog
WATSON-CRICK
A
G
13
A
O6
G
13
1_555
A
C
20
A
N4
C
20
1_555
hydrog
WATSON-CRICK
A
C
14
A
N3
C
14
1_555
A
G
19
A
N1
G
19
1_555
hydrog
WATSON-CRICK
A
C
14
A
N4
C
14
1_555
A
G
19
A
O6
G
19
1_555
hydrog
WATSON-CRICK
A
C
14
A
O2
C
14
1_555
A
G
19
A
N2
G
19
1_555
hydrog
G-A MISPAIR
A
G
15
A
N2
G
15
1_555
A
A
18
A
N7
A
18
1_555
hydrog
TYPE_10_PAIR
A
G
23
A
N2
G
23
1_555
A
A
27
A
N1
A
27
1_555
hydrog
TYPE_10_PAIR
A
G
23
A
N3
G
23
1_555
A
A
27
A
N6
A
27
1_555
hydrog
TYPE_7_PAIR
A
G
24
A
N1
G
24
1_555
A
G
29
A
N7
G
29
1_555
hydrog
TYPE_7_PAIR
A
G
24
A
N2
G
24
1_555
A
G
29
A
O6
G
29
1_555
hydrog
TYPE_10_PAIR
A
G
29
A
N2
G
29
1_555
A
A
31
A
N1
A
31
1_555
hydrog
TYPE_10_PAIR
A
G
29
A
N3
G
29
1_555
A
A
31
A
N6
A
31
1_555
RNA
U-TURN, BASE QUADRUPLE, BASE TRIPLE, GNRA TETRALOOP, 5-BROMO-URIDINE, RNA
1F1T
PDB
1
1F1T
1
38
1F1T
1
38
1F1T
A
1
1
38
BINDING SITE FOR RESIDUE SR A 201
A
SR
201
Software
3
BINDING SITE FOR RESIDUE SR A 205
A
SR
205
Software
2
BINDING SITE FOR RESIDUE SR A 206
A
SR
206
Software
2
BINDING SITE FOR RESIDUE ROS A 101
A
ROS
101
Software
6
A
A
16
A
A
16
3
6_434
A
5BU
32
A
5BU
32
3
1_555
A
G
34
A
G
34
3
1_555
A
A
31
A
A
31
2
1_555
A
G
33
A
G
33
2
1_555
A
G
33
A
G
33
2
1_555
A
HOH
304
K
HOH
2
1_555
A
C
7
A
C
7
6
1_555
A
G
8
A
G
8
6
1_555
A
G
24
A
G
24
6
1_555
A
C
28
A
C
28
6
1_555
A
G
29
A
G
29
6
1_555
A
A
30
A
A
30
6
1_555
179
hexagonal
P 65 2 2