0.028082
0.000000
0.000000
0.000000
0.028082
0.000000
0.000000
0.000000
0.007465
0.00000
0.00000
0.00000
Deng, J.
Xiong, Y.
Pan, B.
Sundaralingam, M.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
90.00
90.00
35.610
35.610
133.960
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 O8 P
402.093
n
5-BROMOCYTIDINE 5'-(DIHYDROGEN PHOSPHATE)
RNA linking
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
H2 O
18.015
WATER
non-polymer
Mg 2
24.305
MAGNESIUM ION
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
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
R
C
N
85
N
O
N
86
R
C
N
87
N
N
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
C
N
92
N
N
N
93
N
C
N
94
N
C
N
95
N
BR
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
H
N
109
N
O
N
110
N
P
N
111
N
O
N
112
N
O
N
113
N
O
N
114
N
C
N
115
R
C
N
116
N
O
N
117
S
C
N
118
N
O
N
119
R
C
N
120
N
O
N
121
R
C
Y
122
N
N
Y
123
N
C
Y
124
N
N
Y
125
N
C
N
126
N
C
N
127
N
O
N
128
N
N
N
129
N
C
N
130
N
N
N
131
N
N
Y
132
N
C
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
H
N
147
N
O
N
148
N
H
N
149
N
H
N
150
N
MG
N
151
N
O
N
152
N
P
N
153
N
O
N
154
N
O
N
155
N
O
N
156
N
C
N
157
R
C
N
158
N
O
N
159
S
C
N
160
N
O
N
161
R
C
N
162
N
O
N
163
R
C
N
164
N
N
N
165
N
C
N
166
N
O
N
167
N
N
N
168
N
C
N
169
N
O
N
170
N
C
N
171
N
C
N
172
N
H
N
173
N
H
N
174
N
H
N
175
N
H
N
176
N
H
N
177
N
H
N
178
N
H
N
179
N
H
N
180
N
H
N
181
N
H
N
182
N
H
N
183
N
H
N
184
N
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
sing
N
79
N
doub
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
sing
N
102
N
doub
N
103
N
sing
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
doub
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
doub
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
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
sing
N
155
N
sing
N
156
N
doub
N
157
N
sing
N
158
N
sing
N
159
N
sing
N
160
N
sing
N
161
N
sing
N
162
N
sing
N
163
N
sing
N
164
N
sing
N
165
N
sing
N
166
N
sing
N
167
N
sing
N
168
N
sing
N
169
N
sing
N
170
N
sing
N
171
N
sing
N
172
N
sing
N
173
N
sing
N
174
N
sing
N
175
N
sing
N
176
N
sing
N
177
N
sing
N
178
N
sing
N
179
N
sing
N
180
N
doub
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
doub
N
185
N
sing
N
186
N
doub
N
187
N
sing
N
188
N
sing
DK
Acta Crystallogr.,Sect.D
ABCRE6
0766
0907-4449
59
1004
1011
10.1107/S0907444903006747
12777762
Structure of an RNA dodecamer containing a fragment from SRP domain IV of Escherichia coli.
2003
10.2210/pdb1lnt/pdb
pdb_00001lnt
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
2001-05-01
ADSC QUANTUM 4
MAD
M
x-ray
1
0.9196
1.0
0.9193
1.0
0.8985
1.0
14-BM-D
APS
0.9196, 0.9193, 0.8985
SYNCHROTRON
APS BEAMLINE 14-BM-D
3922.232
5'-R(*GP*CP*GP*UP*CP*AP*GP*GP*UP*CP*(CBV)P*G)-3'
1
syn
polymer
3968.312
5'-R(*CP*GP*GP*AP*AP*GP*CP*AP*GP*(CBV)P*GP*C)-3'
1
syn
polymer
24.305
MAGNESIUM ION
4
syn
non-polymer
40.078
CALCIUM ION
3
syn
non-polymer
18.015
water
107
nat
water
no
yes
GCGUCAGGUC(CBV)G
GCGUCAGGUCCG
A
polyribonucleotide
no
yes
CGGAAGCAG(CBV)GC
CGGAAGCAGCGC
B
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
1
2.69
54.29
VAPOR DIFFUSION, HANGING DROP
7.0
MPD, Cacodylate buffer, MgCl2, CaCl2, spermidine, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
298
MPD
1
Cacodylate buffer
1
MgCl2
1
CaCl2
1
spermidine
1
-1.388
1
19
A
1
B
24
0.662
A_G1:C24_B
1
-10.593
-0.347
0.002
-0.149
0.519
1
19
A
2
B
23
1.840
A_C2:G23_B
2
-16.487
0.268
0.017
-0.109
-5.534
1
19
A
3
B
22
-1.651
A_G3:CBV22_B
3
-16.105
-0.228
0.144
-0.178
1.319
28
A
4
B
21
-10.888
A_U4:G21_B
4
-10.611
2.543
0.222
-0.673
-0.499
6
A
5
B
20
-16.913
A_C5:A20_B
5
-11.671
6.560
1.123
-4.252
1.453
4
25
A
6
B
19
-90.556
A_A6:C19_B
6
-10.748
-3.161
-0.400
-0.480
3.635
A
7
B
18
-18.879
A_G7:G18_B
7
-9.175
-7.260
0.427
-2.298
6.738
8
A
8
B
17
-14.169
A_G8:A17_B
8
-13.276
-0.083
-0.214
1.437
8.541
1
20
A
9
B
16
-5.493
A_U9:A16_B
9
-8.008
-0.147
-0.133
0.015
10.754
1
19
A
10
B
15
0.335
A_C10:G15_B
10
-8.735
0.276
-0.032
-0.178
3.506
1
19
A
11
B
14
-0.199
A_CBV11:G14_B
11
-10.627
0.280
-0.141
-0.217
0.635
1
19
A
12
B
13
-0.482
A_G12:C13_B
12
-9.011
-0.138
0.014
-0.137
2.949
35.700
A
A
1
2
11.016
B
B
24
23
3.218
6.715
-0.020
-1.179
AA_G1C2:G23C24_BB
1
0.296
-0.485
35.081
-2.847
0.073
2.090
34.505
A
A
2
3
27.724
B
B
23
22
3.201
15.860
-0.010
-1.717
AA_C2G3:CBV22G23_BB
2
0.764
-1.335
30.734
-5.007
0.119
3.011
42.773
A
A
3
4
4.960
B
B
22
21
3.128
3.613
-0.122
-1.282
AA_G3U4:G21CBV22_BB
3
1.055
-1.449
42.614
-2.098
0.267
2.998
44.700
A
A
4
5
14.097
B
B
21
20
3.560
10.617
0.843
-2.329
AA_U4C5:A20G21_BB
4
3.821
-5.073
43.323
-4.051
-0.753
2.600
11.927
A
A
5
6
54.660
B
B
20
19
2.595
9.478
-5.424
-0.581
AA_C5A6:C19A20_BB
5
-3.768
21.732
6.191
-15.856
20.912
3.287
28.256
A
A
6
7
1.666
B
B
19
18
2.964
0.813
4.798
-1.018
AA_A6G7:G18C19_BB
6
2.172
-4.453
28.163
-2.267
-9.346
3.178
56.539
A
A
7
8
5.481
B
B
18
17
3.317
5.186
0.085
-1.512
AA_G7G8:A17G18_BB
7
0.114
-0.120
56.320
-1.886
-0.084
3.090
27.356
A
A
8
9
0.006
B
B
17
16
3.164
0.003
0.793
-2.166
AA_G8U9:A16A17_BB
8
-2.213
4.684
27.268
-4.581
-2.203
2.993
30.575
A
A
9
10
5.016
B
B
16
15
3.250
2.636
0.254
-2.276
AA_U9C10:G15A16_BB
9
-3.715
7.070
30.242
-4.818
-1.188
3.228
33.461
A
A
10
11
5.992
B
B
15
14
3.455
3.444
-0.503
-2.175
AA_C10CBV11:G14G15_BB
10
-0.614
1.069
33.283
-4.359
0.770
2.835
31.578
A
A
11
12
14.111
B
B
14
13
3.360
7.607
-0.019
-1.833
AA_CBV11G12:C13G14_BB
11
-0.042
0.078
30.671
-4.726
0.028
chem_comp_atom
chem_comp_bond
database_2
pdbx_struct_conn_angle
pdbx_validate_polymer_linkage
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Non-polymer description
Advisory
Data collection
Database references
Derived calculations
1
0
2003-06-03
1
1
2008-04-28
1
2
2011-07-13
1
3
2011-11-02
1
4
2024-02-14
_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.ptnr2_auth_comp_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr2_label_atom_id
_pdbx_struct_conn_angle.ptnr2_label_comp_id
_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.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.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
RCSB
Y
RCSB
2002-05-03
REL
REL
MG
MAGNESIUM ION
CA
CALCIUM ION
HOH
water
MG
102
3
MG
MG
102
A
MG
103
3
MG
MG
103
A
MG
104
3
MG
MG
104
A
CA
112
4
CA
CA
112
A
CA
113
4
CA
CA
113
A
MG
101
3
MG
MG
101
B
CA
111
4
CA
CA
111
B
HOH
201
5
HOH
HOH
201
A
HOH
203
5
HOH
HOH
203
A
HOH
206
5
HOH
HOH
206
A
HOH
208
5
HOH
HOH
208
A
HOH
210
5
HOH
HOH
210
A
HOH
212
5
HOH
HOH
212
A
HOH
214
5
HOH
HOH
214
A
HOH
216
5
HOH
HOH
216
A
HOH
217
5
HOH
HOH
217
A
HOH
220
5
HOH
HOH
220
A
HOH
227
5
HOH
HOH
227
A
HOH
228
5
HOH
HOH
228
A
HOH
229
5
HOH
HOH
229
A
HOH
230
5
HOH
HOH
230
A
HOH
232
5
HOH
HOH
232
A
HOH
233
5
HOH
HOH
233
A
HOH
234
5
HOH
HOH
234
A
HOH
235
5
HOH
HOH
235
A
HOH
236
5
HOH
HOH
236
A
HOH
240
5
HOH
HOH
240
A
HOH
242
5
HOH
HOH
242
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
247
5
HOH
HOH
247
A
HOH
248
5
HOH
HOH
248
A
HOH
256
5
HOH
HOH
256
A
HOH
257
5
HOH
HOH
257
A
HOH
258
5
HOH
HOH
258
A
HOH
259
5
HOH
HOH
259
A
HOH
261
5
HOH
HOH
261
A
HOH
262
5
HOH
HOH
262
A
HOH
265
5
HOH
HOH
265
A
HOH
270
5
HOH
HOH
270
A
HOH
273
5
HOH
HOH
273
A
HOH
276
5
HOH
HOH
276
A
HOH
278
5
HOH
HOH
278
A
HOH
279
5
HOH
HOH
279
A
HOH
280
5
HOH
HOH
280
A
HOH
285
5
HOH
HOH
285
A
HOH
286
5
HOH
HOH
286
A
HOH
287
5
HOH
HOH
287
A
HOH
291
5
HOH
HOH
291
A
HOH
292
5
HOH
HOH
292
A
HOH
293
5
HOH
HOH
293
A
HOH
294
5
HOH
HOH
294
A
HOH
298
5
HOH
HOH
298
A
HOH
300
5
HOH
HOH
300
A
HOH
302
5
HOH
HOH
302
A
HOH
306
5
HOH
HOH
306
A
HOH
307
5
HOH
HOH
307
A
HOH
309
5
HOH
HOH
309
A
HOH
310
5
HOH
HOH
310
A
HOH
311
5
HOH
HOH
311
A
HOH
202
5
HOH
HOH
202
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
213
5
HOH
HOH
213
B
HOH
215
5
HOH
HOH
215
B
HOH
218
5
HOH
HOH
218
B
HOH
219
5
HOH
HOH
219
B
HOH
221
5
HOH
HOH
221
B
HOH
222
5
HOH
HOH
222
B
HOH
223
5
HOH
HOH
223
B
HOH
224
5
HOH
HOH
224
B
HOH
225
5
HOH
HOH
225
B
HOH
226
5
HOH
HOH
226
B
HOH
231
5
HOH
HOH
231
B
HOH
237
5
HOH
HOH
237
B
HOH
238
5
HOH
HOH
238
B
HOH
239
5
HOH
HOH
239
B
HOH
241
5
HOH
HOH
241
B
HOH
249
5
HOH
HOH
249
B
HOH
250
5
HOH
HOH
250
B
HOH
251
5
HOH
HOH
251
B
HOH
252
5
HOH
HOH
252
B
HOH
253
5
HOH
HOH
253
B
HOH
254
5
HOH
HOH
254
B
HOH
255
5
HOH
HOH
255
B
HOH
260
5
HOH
HOH
260
B
HOH
263
5
HOH
HOH
263
B
HOH
266
5
HOH
HOH
266
B
HOH
267
5
HOH
HOH
267
B
HOH
268
5
HOH
HOH
268
B
HOH
269
5
HOH
HOH
269
B
HOH
271
5
HOH
HOH
271
B
HOH
272
5
HOH
HOH
272
B
HOH
274
5
HOH
HOH
274
B
HOH
275
5
HOH
HOH
275
B
HOH
277
5
HOH
HOH
277
B
HOH
281
5
HOH
HOH
281
B
HOH
282
5
HOH
HOH
282
B
HOH
283
5
HOH
HOH
283
B
HOH
284
5
HOH
HOH
284
B
HOH
288
5
HOH
HOH
288
B
HOH
290
5
HOH
HOH
290
B
HOH
295
5
HOH
HOH
295
B
HOH
296
5
HOH
HOH
296
B
HOH
297
5
HOH
HOH
297
B
HOH
299
5
HOH
HOH
299
B
HOH
301
5
HOH
HOH
301
B
HOH
303
5
HOH
HOH
303
B
HOH
304
5
HOH
HOH
304
B
HOH
308
5
HOH
HOH
308
B
G
1
n
1
G
1
A
C
2
n
2
C
2
A
G
3
n
3
G
3
A
U
4
n
4
U
4
A
C
5
n
5
C
5
A
A
6
n
6
A
6
A
G
7
n
7
G
7
A
G
8
n
8
G
8
A
U
9
n
9
U
9
A
C
10
n
10
C
10
A
CBV
11
n
11
CBV
11
A
G
12
n
12
G
12
A
C
13
n
1
C
13
B
G
14
n
2
G
14
B
G
15
n
3
G
15
B
A
16
n
4
A
16
B
A
17
n
5
A
17
B
G
18
n
6
G
18
B
C
19
n
7
C
19
B
A
20
n
8
A
20
B
G
21
n
9
G
21
B
CBV
22
n
10
CBV
22
B
G
23
n
11
G
23
B
C
24
n
12
C
24
B
author_defined_assembly
2
dimeric
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
236
J
O
HOH
1_555
100.4
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
240
J
O
HOH
1_555
70.3
A
HOH
236
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
240
J
O
HOH
1_555
78.4
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
242
J
O
HOH
1_555
138.8
A
HOH
236
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
242
J
O
HOH
1_555
84.2
A
HOH
240
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
242
J
O
HOH
1_555
70.7
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
247
J
O
HOH
1_555
71.7
A
HOH
236
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
247
J
O
HOH
1_555
139.7
A
HOH
240
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
247
J
O
HOH
1_555
61.6
A
HOH
242
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
247
J
O
HOH
1_555
78.6
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
75.9
A
HOH
236
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
144.7
A
HOH
240
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
129.9
A
HOH
242
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
122.0
A
HOH
247
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
73.4
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
131.4
A
HOH
236
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
97.0
A
HOH
240
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
158.3
A
HOH
242
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
87.8
A
HOH
247
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
118.2
A
HOH
261
J
O
HOH
1_555
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
64.2
A
HOH
208
J
O
HOH
1_555
A
MG
102
C
MG
MG
1_555
A
HOH
208
J
O
HOH
7_555
153.5
A
HOH
208
J
O
HOH
1_555
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
1_555
72.9
A
HOH
208
J
O
HOH
7_555
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
1_555
101.2
A
HOH
208
J
O
HOH
1_555
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
7_555
101.3
A
HOH
208
J
O
HOH
7_555
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
7_555
72.7
A
HOH
280
J
O
HOH
1_555
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
7_555
154.7
A
HOH
270
J
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
260
K
O
HOH
1_555
77.6
A
HOH
270
J
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
271
K
O
HOH
1_555
163.2
B
HOH
260
K
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
271
K
O
HOH
1_555
85.5
A
HOH
270
J
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
308
K
O
HOH
1_555
106.2
B
HOH
260
K
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
308
K
O
HOH
1_555
81.0
B
HOH
271
K
O
HOH
1_555
A
MG
103
D
MG
MG
1_555
B
HOH
308
K
O
HOH
1_555
71.1
A
HOH
220
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
234
J
O
HOH
1_555
89.1
A
HOH
220
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
243
J
O
HOH
1_555
81.4
A
HOH
234
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
243
J
O
HOH
1_555
149.2
A
HOH
220
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
245
J
O
HOH
1_555
92.4
A
HOH
234
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
245
J
O
HOH
1_555
89.9
A
HOH
243
J
O
HOH
1_555
A
MG
104
E
MG
MG
1_555
A
HOH
245
J
O
HOH
1_555
119.5
A
HOH
214
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
214
J
O
HOH
7_555
179.6
A
HOH
214
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
1_555
100.6
A
HOH
214
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
1_555
79.1
A
HOH
214
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
7_555
79.1
A
HOH
214
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
7_555
100.6
A
HOH
233
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
7_555
75.4
A
HOH
214
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
1_555
90.1
A
HOH
214
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
1_555
90.2
A
HOH
233
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
1_555
98.2
A
HOH
233
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
1_555
166.0
A
HOH
214
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
90.2
A
HOH
214
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
90.1
A
HOH
233
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
166.0
A
HOH
233
J
O
HOH
7_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
98.2
A
HOH
234
J
O
HOH
1_555
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
90.5
B
HOH
250
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
255
K
O
HOH
1_555
70.9
B
HOH
250
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
269
K
O
HOH
1_555
97.4
B
HOH
255
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
269
K
O
HOH
1_555
108.9
B
HOH
250
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
272
K
O
HOH
1_555
104.2
B
HOH
255
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
272
K
O
HOH
1_555
107.9
B
HOH
269
K
O
HOH
1_555
B
MG
101
H
MG
MG
1_555
B
HOH
272
K
O
HOH
1_555
141.8
B
HOH
213
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
218
K
O
HOH
1_555
90.5
B
HOH
213
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
219
K
O
HOH
1_555
86.5
B
HOH
218
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
219
K
O
HOH
1_555
177.0
B
HOH
213
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
222
K
O
HOH
1_555
175.6
B
HOH
218
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
222
K
O
HOH
1_555
89.4
B
HOH
219
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
222
K
O
HOH
1_555
93.6
B
HOH
213
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
263
K
O
HOH
1_555
90.4
B
HOH
218
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
263
K
O
HOH
1_555
85.0
B
HOH
219
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
263
K
O
HOH
1_555
94.4
B
HOH
222
K
O
HOH
1_555
B
CA
111
I
CA
CA
1_555
B
HOH
263
K
O
HOH
1_555
94.0
A
CBV
11
A
CBV
11
C
B
CBV
22
B
CBV
10
C
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
MG
102
C
MG
1
A
CA
113
G
CA
1
A
HOH
286
J
HOH
1
A
O2'
CBV
11
A
O2'
CBV
11
1
Y
1
B
O2'
CBV
22
B
O2'
CBV
10
1
Y
1
A
HOH
262
J
HOH
0
N
1
A
A
O3'
P
CBV
G
11
12
0.145
0.012
1.607
1.752
Y
1
B
B
O3'
P
CBV
G
22
23
0.166
0.012
1.607
1.773
Y
0.225
0.2
1.7
50
1677
18086
17827
1
2
MAD
Engh & Huber
1.7
50
107
626
7
512
0
0.0116
1.645
1.7
50
1LNT
18100
18086
1
99.9
data reduction
DENZO
data scaling
SCALEPACK
phasing
SOLVE
refinement
CNS
1.0
Crystal Structure of the Highly Conserved RNA Internal Loop of SRP
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
4
N
N
4
N
N
3
N
N
4
N
N
5
N
N
5
N
N
covale
1.636
both
A
C
10
A
O3'
C
10
1_555
A
CBV
11
A
P
CBV
11
1_555
covale
1.752
one
A
CBV
11
A
O3'
CBV
11
1_555
A
G
12
A
P
G
12
1_555
covale
1.608
both
B
G
21
B
O3'
G
9
1_555
B
CBV
22
B
P
CBV
10
1_555
covale
1.773
one
B
CBV
22
B
O3'
CBV
10
1_555
B
G
23
B
P
G
11
1_555
metalc
2.610
A
G
7
A
OP2
G
7
1_555
A
CA
112
F
CA
CA
1_555
metalc
2.010
A
MG
102
C
MG
MG
1_555
A
HOH
208
J
O
HOH
1_555
metalc
2.018
A
MG
102
C
MG
MG
1_555
A
HOH
208
J
O
HOH
7_555
metalc
1.866
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
1_555
metalc
1.871
A
MG
102
C
MG
MG
1_555
A
HOH
280
J
O
HOH
7_555
metalc
2.078
A
MG
103
D
MG
MG
1_555
A
HOH
270
J
O
HOH
1_555
metalc
2.626
A
MG
103
D
MG
MG
1_555
B
HOH
260
K
O
HOH
1_555
metalc
2.330
A
MG
103
D
MG
MG
1_555
B
HOH
271
K
O
HOH
1_555
metalc
2.452
A
MG
103
D
MG
MG
1_555
B
HOH
308
K
O
HOH
1_555
metalc
1.971
A
MG
104
E
MG
MG
1_555
A
HOH
220
J
O
HOH
1_555
metalc
2.207
A
MG
104
E
MG
MG
1_555
A
HOH
234
J
O
HOH
1_555
metalc
2.231
A
MG
104
E
MG
MG
1_555
A
HOH
243
J
O
HOH
1_555
metalc
2.464
A
MG
104
E
MG
MG
1_555
A
HOH
245
J
O
HOH
1_555
metalc
1.887
A
CA
112
F
CA
CA
1_555
A
HOH
236
J
O
HOH
1_555
metalc
2.407
A
CA
112
F
CA
CA
1_555
A
HOH
240
J
O
HOH
1_555
metalc
2.249
A
CA
112
F
CA
CA
1_555
A
HOH
242
J
O
HOH
1_555
metalc
2.639
A
CA
112
F
CA
CA
1_555
A
HOH
247
J
O
HOH
1_555
metalc
2.084
A
CA
112
F
CA
CA
1_555
A
HOH
261
J
O
HOH
1_555
metalc
2.269
A
CA
112
F
CA
CA
1_555
A
HOH
262
J
O
HOH
1_555
metalc
2.298
A
CA
113
G
CA
CA
1_555
A
HOH
214
J
O
HOH
1_555
metalc
2.298
A
CA
113
G
CA
CA
1_555
A
HOH
214
J
O
HOH
7_555
metalc
2.487
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
1_555
metalc
2.487
A
CA
113
G
CA
CA
1_555
A
HOH
233
J
O
HOH
7_555
metalc
2.066
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
1_555
metalc
2.066
A
CA
113
G
CA
CA
1_555
A
HOH
234
J
O
HOH
7_555
metalc
2.142
B
MG
101
H
MG
MG
1_555
B
HOH
250
K
O
HOH
1_555
metalc
2.002
B
MG
101
H
MG
MG
1_555
B
HOH
255
K
O
HOH
1_555
metalc
1.861
B
MG
101
H
MG
MG
1_555
B
HOH
269
K
O
HOH
1_555
metalc
2.644
B
MG
101
H
MG
MG
1_555
B
HOH
272
K
O
HOH
1_555
metalc
2.180
B
CA
111
I
CA
CA
1_555
B
HOH
213
K
O
HOH
1_555
metalc
2.103
B
CA
111
I
CA
CA
1_555
B
HOH
218
K
O
HOH
1_555
metalc
2.026
B
CA
111
I
CA
CA
1_555
B
HOH
219
K
O
HOH
1_555
metalc
2.286
B
CA
111
I
CA
CA
1_555
B
HOH
222
K
O
HOH
1_555
metalc
1.743
B
CA
111
I
CA
CA
1_555
B
HOH
263
K
O
HOH
1_555
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
B
C
24
B
N3
C
12
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
B
C
24
B
O2
C
12
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
B
C
24
B
N4
C
12
1_555
hydrog
WATSON-CRICK
A
C
2
A
N3
C
2
1_555
B
G
23
B
N1
G
11
1_555
hydrog
WATSON-CRICK
A
C
2
A
N4
C
2
1_555
B
G
23
B
O6
G
11
1_555
hydrog
WATSON-CRICK
A
C
2
A
O2
C
2
1_555
B
G
23
B
N2
G
11
1_555
hydrog
WATSON-CRICK
A
G
3
A
N1
G
3
1_555
B
CBV
22
B
N3
CBV
10
1_555
hydrog
WATSON-CRICK
A
G
3
A
N2
G
3
1_555
B
CBV
22
B
O2
CBV
10
1_555
hydrog
WATSON-CRICK
A
G
3
A
O6
G
3
1_555
B
CBV
22
B
N4
CBV
10
1_555
hydrog
TYPE_28_PAIR
A
U
4
A
N3
U
4
1_555
B
G
21
B
O6
G
9
1_555
hydrog
TYPE_28_PAIR
A
U
4
A
O2
U
4
1_555
B
G
21
B
N1
G
9
1_555
hydrog
C-C MISPAIR
A
C
5
A
O2
C
5
1_555
B
C
19
B
N4
C
7
1_555
hydrog
C-A MISPAIR
A
C
5
A
O2
C
5
1_555
B
A
20
B
N6
A
8
1_555
hydrog
TYPE_25_PAIR
A
A
6
A
N6
A
6
1_555
B
C
19
B
N3
C
7
1_555
hydrog
TYPE_25_PAIR
A
A
6
A
N7
A
6
1_555
B
C
19
B
N4
C
7
1_555
hydrog
G-G MISPAIR
A
G
7
A
O6
G
7
1_555
B
G
18
B
N2
G
6
1_555
hydrog
TYPE_8_PAIR
A
G
8
A
N1
G
8
1_555
B
A
17
B
N1
A
5
1_555
hydrog
TYPE_8_PAIR
A
G
8
A
O6
G
8
1_555
B
A
17
B
N6
A
5
1_555
hydrog
WATSON-CRICK
A
U
9
A
N3
U
9
1_555
B
A
16
B
N1
A
4
1_555
hydrog
WATSON-CRICK
A
U
9
A
O4
U
9
1_555
B
A
16
B
N6
A
4
1_555
hydrog
WATSON-CRICK
A
C
10
A
N3
C
10
1_555
B
G
15
B
N1
G
3
1_555
hydrog
WATSON-CRICK
A
C
10
A
N4
C
10
1_555
B
G
15
B
O6
G
3
1_555
hydrog
WATSON-CRICK
A
C
10
A
O2
C
10
1_555
B
G
15
B
N2
G
3
1_555
hydrog
WATSON-CRICK
A
CBV
11
A
N3
CBV
11
1_555
B
G
14
B
N1
G
2
1_555
hydrog
WATSON-CRICK
A
CBV
11
A
N4
CBV
11
1_555
B
G
14
B
O6
G
2
1_555
hydrog
WATSON-CRICK
A
CBV
11
A
O2
CBV
11
1_555
B
G
14
B
N2
G
2
1_555
hydrog
WATSON-CRICK
A
G
12
A
N1
G
12
1_555
B
C
13
B
N3
C
1
1_555
hydrog
WATSON-CRICK
A
G
12
A
N2
G
12
1_555
B
C
13
B
O2
C
1
1_555
hydrog
WATSON-CRICK
A
G
12
A
O6
G
12
1_555
B
C
13
B
N4
C
1
1_555
RNA
SRP, internal loop, mispair, RNA
1LNT
PDB
1
1LNT
1LNT
PDB
2
1LNT
1
12
1LNT
1
12
1LNT
A
1
1
12
13
24
1LNT
13
24
1LNT
B
2
1
12
BINDING SITE FOR RESIDUE MG B 101
B
MG
101
Software
4
BINDING SITE FOR RESIDUE MG A 102
A
MG
102
Software
4
BINDING SITE FOR RESIDUE MG A 103
A
MG
103
Software
4
BINDING SITE FOR RESIDUE MG A 104
A
MG
104
Software
4
BINDING SITE FOR RESIDUE CA B 111
B
CA
111
Software
5
BINDING SITE FOR RESIDUE CA A 112
A
CA
112
Software
6
BINDING SITE FOR RESIDUE CA A 113
A
CA
113
Software
6
B
HOH
250
K
HOH
4
1_555
B
HOH
255
K
HOH
4
1_555
B
HOH
269
K
HOH
4
1_555
B
HOH
272
K
HOH
4
1_555
A
HOH
208
J
HOH
4
1_555
A
HOH
208
J
HOH
4
7_555
A
HOH
280
J
HOH
4
1_555
A
HOH
280
J
HOH
4
7_555
A
HOH
270
J
HOH
4
1_555
B
HOH
260
K
HOH
4
1_555
B
HOH
271
K
HOH
4
1_555
B
HOH
308
K
HOH
4
1_555
A
HOH
220
J
HOH
4
1_555
A
HOH
234
J
HOH
4
1_555
A
HOH
243
J
HOH
4
1_555
A
HOH
245
J
HOH
4
1_555
B
HOH
213
K
HOH
5
1_555
B
HOH
218
K
HOH
5
1_555
B
HOH
219
K
HOH
5
1_555
B
HOH
222
K
HOH
5
1_555
B
HOH
263
K
HOH
5
1_555
A
G
7
A
G
7
6
1_555
A
HOH
236
J
HOH
6
1_555
A
HOH
240
J
HOH
6
1_555
A
HOH
242
J
HOH
6
1_555
A
HOH
247
J
HOH
6
1_555
A
HOH
261
J
HOH
6
1_555
A
HOH
214
J
HOH
6
7_555
A
HOH
214
J
HOH
6
1_555
A
HOH
233
J
HOH
6
1_555
A
HOH
233
J
HOH
6
7_555
A
HOH
234
J
HOH
6
7_555
A
HOH
234
J
HOH
6
1_555
95
P 43 2 2