0.023267
0.013433
0.000000
0.000000
0.026866
0.000000
0.000000
0.000000
0.004321
0.00000
0.00000
0.00000
1999-12-02
initial release
Wild, K.
Weichenrieder, O.
Leonard, G.A.
Cusack, S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
42.980
42.980
231.420
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C10 H13 N5 O9 P2
409.186
n
ADENOSINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE
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
C10 H15 N5 O11 P2
443.201
n
GUANOSINE-5'-DIPHOSPHATE
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
S
P
N
39
N
O
N
40
N
O
N
41
N
P
N
42
N
O
N
43
N
O
N
44
N
O
N
45
N
O
N
46
N
C
N
47
R
C
N
48
N
O
N
49
R
C
N
50
N
O
N
51
R
C
N
52
N
O
N
53
R
C
Y
54
N
N
Y
55
N
C
Y
56
N
N
Y
57
N
C
Y
58
N
C
N
59
N
N
Y
60
N
N
Y
61
N
C
Y
62
N
N
Y
63
N
C
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
H
N
71
N
H
N
72
N
H
N
73
N
H
N
74
N
H
N
75
N
H
N
76
N
H
N
77
N
O
N
78
N
P
N
79
N
O
N
80
N
O
N
81
N
O
N
82
N
C
N
83
R
C
N
84
N
O
N
85
S
C
N
86
N
O
N
87
R
C
N
88
N
O
N
89
R
C
N
90
N
N
N
91
N
C
N
92
N
O
N
93
N
N
N
94
N
C
N
95
N
N
N
96
N
C
N
97
N
C
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
H
N
110
N
H
N
111
N
H
N
112
N
O
N
113
N
P
N
114
N
O
N
115
N
O
N
116
N
O
N
117
N
C
N
118
R
C
N
119
N
O
N
120
S
C
N
121
N
O
N
122
R
C
N
123
N
O
N
124
R
C
Y
125
N
N
Y
126
N
C
Y
127
N
N
Y
128
N
C
N
129
N
C
N
130
N
O
N
131
N
N
N
132
N
C
N
133
N
N
N
134
N
N
Y
135
N
C
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
H
N
148
N
H
N
149
N
H
N
150
N
P
N
151
N
O
N
152
N
O
N
153
N
O
N
154
N
O
N
155
N
P
N
156
N
O
N
157
N
O
N
158
N
O
N
159
N
C
N
160
R
C
N
161
N
O
N
162
S
C
N
163
N
O
N
164
R
C
N
165
N
O
N
166
R
C
Y
167
N
N
Y
168
N
C
Y
169
N
N
Y
170
N
C
N
171
N
C
N
172
N
O
N
173
N
N
N
174
N
C
N
175
N
N
N
176
N
N
Y
177
N
C
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
O
N
194
N
H
N
195
N
H
N
196
N
MG
N
197
N
O
N
198
N
P
N
199
N
O
N
200
N
O
N
201
N
O
N
202
N
C
N
203
R
C
N
204
N
O
N
205
S
C
N
206
N
O
N
207
R
C
N
208
N
O
N
209
R
C
N
210
N
N
N
211
N
C
N
212
N
O
N
213
N
N
N
214
N
C
N
215
N
O
N
216
N
C
N
217
N
C
N
218
N
H
N
219
N
H
N
220
N
H
N
221
N
H
N
222
N
H
N
223
N
H
N
224
N
H
N
225
N
H
N
226
N
H
N
227
N
H
N
228
N
H
N
229
N
H
N
230
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
doub
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
doub
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
sing
Y
67
N
sing
Y
68
N
sing
Y
69
N
doub
N
70
N
sing
Y
71
N
sing
Y
72
N
sing
Y
73
N
doub
N
74
N
sing
Y
75
N
doub
N
76
N
sing
N
77
N
sing
Y
78
N
sing
Y
79
N
doub
N
80
N
sing
Y
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
doub
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
sing
N
103
N
sing
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
doub
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
doub
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
doub
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
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
Y
142
N
sing
Y
143
N
sing
Y
144
N
doub
N
145
N
sing
Y
146
N
sing
N
147
N
sing
Y
148
N
doub
N
149
N
doub
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
N
154
N
doub
N
155
N
sing
N
156
N
sing
N
157
N
sing
N
158
N
doub
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
doub
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
sing
N
181
N
sing
N
182
N
sing
N
183
N
sing
N
184
N
sing
N
185
N
sing
N
186
N
sing
Y
187
N
sing
Y
188
N
sing
Y
189
N
doub
N
190
N
sing
Y
191
N
sing
N
192
N
sing
Y
193
N
doub
N
194
N
doub
N
195
N
sing
N
196
N
sing
N
197
N
sing
N
198
N
sing
N
199
N
doub
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
doub
N
208
N
sing
N
209
N
sing
N
210
N
sing
N
211
N
sing
N
212
N
sing
N
213
N
sing
N
214
N
sing
N
215
N
sing
N
216
N
sing
N
217
N
sing
N
218
N
sing
N
219
N
sing
N
220
N
sing
N
221
N
sing
N
222
N
sing
N
223
N
sing
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
doub
N
232
N
sing
N
233
N
sing
N
234
N
sing
N
235
N
doub
N
236
N
sing
N
237
N
doub
N
238
N
sing
N
239
N
sing
UK
Structure Fold.Des.
FODEFH
1263
0969-2126
7
1345
1352
10.1016/S0969-2126(00)80024-6
10574798
The 2 A structure of helix 6 of the human signal recognition particle RNA
1999
10.2210/pdb1d4r/pdb
pdb_00001d4r
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
100.0
1
CCD
1998-12-07
ADSC QUANTUM 4
SINGLE WAVELENGTH
M
x-ray
1
0.93
1.0
ID14-4
ESRF
0.93
SYNCHROTRON
ESRF BEAMLINE ID14-4
9550.621
29-MER OF MODIFIED SRP RNA HELIX 6
NON-NATIVE DUPLEX
C28U
1
syn
polymer
9488.656
29-MER OF MODIFIED SRP RNA HELIX 6
NON-NATIVE DUPLEX
C28U
2
syn
polymer
24.305
MAGNESIUM ION
5
syn
non-polymer
18.015
water
122
nat
water
no
yes
(GDP)GUGACCUCCCGGGAGCGGGGGACCACU(A23)
GGUGACCUCCCGGGAGCGGGGGACCACUA
A
polyribonucleotide
no
yes
(GDP)GUGACCUCCCGGGAGCGGGGGACCACUA
GGUGACCUCCCGGGAGCGGGGGACCACUA
B,C
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
1
2.16
43.13
VAPOR DIFFUSION, HANGING DROP
5.5
100 MM MGCL2, 1 MM SPERMINE TETRAHYDROCHLORIDE, 50 MM MES, 15-20% (W/V) PEG 8000, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
293
MGCL2
1
SPERMINE TETRAHYDROCHLORIDE
1
MES
1
PEG 8000
1
PEG 8000
2
MGCL2
2
-7.861
1
28
A
1
B
28
1.354
A_GDP1:U28_B
1
-13.268
-2.300
-0.107
-0.508
-1.564
1
19
A
2
B
27
1.631
A_G2:C27_B
2
-15.242
0.013
0.052
-0.135
-2.828
1
20
A
3
B
26
2.422
A_U3:A26_B
3
-10.516
0.111
0.014
-0.238
-1.434
1
19
A
4
B
25
2.476
A_G4:C25_B
4
-16.839
-0.128
0.104
-0.289
2.590
1
A
5
B
24
10.780
A_A5:C24_B
5
-12.135
-2.718
0.143
-0.483
14.238
1
A
6
B
23
17.616
A_C6:A23_B
6
-17.246
-1.526
-0.023
0.528
4.393
1
19
A
7
B
22
4.545
A_C7:G22_B
7
-15.966
0.725
-0.014
-0.127
1.285
28
A
8
B
21
2.826
A_U8:G21_B
8
-11.207
2.577
-0.116
-0.795
10.768
1
19
A
9
B
20
-0.648
A_C9:G20_B
9
-12.529
-0.323
-0.215
-0.244
10.932
1
19
A
10
B
19
-2.351
A_C10:G19_B
10
-9.662
0.029
-0.238
-0.064
-1.848
1
19
A
11
B
18
0.111
A_C11:G18_B
11
-7.667
-0.113
-0.215
-0.205
-9.195
1
19
A
12
B
17
1.953
A_G12:C17_B
12
-12.111
0.034
0.225
-0.129
5.523
A
13
B
16
-48.722
A_G13:G16_B
13
-1.014
-3.906
-0.149
0.963
0.804
A
14
B
15
-58.355
A_G14:A15_B
14
-13.968
0.187
-0.747
3.108
-7.458
A
16
B
13
-61.437
A_G16:G13_B
15
-1.745
3.929
-0.194
1.326
2.812
1
19
A
17
B
12
-2.627
A_C17:G12_B
16
-7.871
0.792
0.098
-0.441
1.345
1
19
A
18
B
11
-1.021
A_G18:C11_B
17
-9.998
-0.226
-0.123
-0.403
-6.345
1
19
A
19
B
10
0.697
A_G19:C10_B
18
-9.631
0.056
-0.062
-0.160
-4.633
1
19
A
20
B
9
3.176
A_G20:C9_B
19
-5.785
-0.055
0.061
-0.100
-6.302
1
28
A
21
B
8
-0.413
A_G21:U8_B
20
-7.642
-2.302
-0.040
-0.608
-8.066
1
19
A
22
B
7
2.513
A_G22:C7_B
21
-10.445
-0.573
-0.270
-0.268
-2.621
1
A
23
B
6
10.285
A_A23:C6_B
22
-8.940
-2.501
0.402
-0.450
4.387
1
A
24
B
5
9.467
A_C24:A5_B
23
-8.695
2.399
0.154
-0.347
3.908
1
19
A
25
B
4
2.927
A_C25:G4_B
24
-6.178
-0.149
0.181
-0.052
4.909
1
20
A
26
B
3
-0.373
A_A26:U3_B
25
-16.084
-0.151
-0.143
-0.075
0.312
1
19
A
27
B
2
-0.281
A_C27:G2_B
26
-17.065
0.098
0.150
-0.099
5.673
28
A
28
B
1
-1.833
A_U28:GDP1_B
27
-15.487
2.460
-0.028
-0.672
-18.765
1
19
C
2
C
27
0.586
C_G2:C27_C
28
-11.370
0.265
0.273
-0.053
-13.429
1
20
C
3
C
26
-6.501
C_U3:A26_C
29
-4.480
0.029
0.294
0.008
-4.836
1
19
C
4
C
25
6.649
C_G4:C25_C
30
-17.744
-0.572
0.003
-0.124
-4.962
1
C
5
C
24
4.435
C_A5:C24_C
31
-10.970
-1.767
-0.010
-0.393
7.038
1
C
6
C
23
6.516
C_C6:A23_C
32
-15.282
-0.954
-0.033
-0.025
10.134
1
19
C
7
C
22
2.738
C_C7:G22_C
33
-13.833
0.657
-0.185
-0.159
3.889
1
28
C
8
C
21
-0.110
C_U8:G21_C
34
-14.336
2.283
-0.014
-0.674
6.496
1
19
C
9
C
20
1.812
C_C9:G20_C
35
-7.792
0.328
-0.129
-0.217
4.073
1
19
C
10
C
19
4.922
C_C10:G19_C
36
-11.609
0.170
-0.036
-0.176
-1.596
1
19
C
11
C
18
0.472
C_C11:G18_C
37
-5.483
-0.047
-0.071
-0.264
-6.100
1
19
C
12
C
17
0.651
C_G12:C17_C
38
-6.121
-0.345
0.149
-0.255
4.165
C
13
C
16
-59.260
C_G13:G16_C
39
-5.810
-3.929
-0.019
1.157
-1.133
C
14
C
15
-62.363
C_G14:A15_C
40
-10.816
-0.166
-0.584
2.876
1.133
C
15
C
14
-62.363
C_A15:G14_C
41
-10.816
0.166
-0.584
2.876
-4.165
C
16
C
13
-59.260
C_G16:G13_C
42
-5.810
3.929
-0.019
1.157
6.100
1
19
C
17
C
12
0.651
C_C17:G12_C
43
-6.121
0.345
0.149
-0.255
1.596
1
19
C
18
C
11
0.472
C_G18:C11_C
44
-5.483
0.047
-0.071
-0.264
-4.073
1
19
C
19
C
10
4.922
C_G19:C10_C
45
-11.609
-0.170
-0.036
-0.176
-6.496
1
19
C
20
C
9
1.812
C_G20:C9_C
46
-7.792
-0.328
-0.129
-0.217
-3.889
1
28
C
21
C
8
-0.110
C_G21:U8_C
47
-14.336
-2.283
-0.014
-0.674
-10.134
1
19
C
22
C
7
2.738
C_G22:C7_C
48
-13.833
-0.657
-0.185
-0.159
-7.038
1
C
23
C
6
6.516
C_A23:C6_C
49
-15.282
0.954
-0.033
-0.025
4.962
1
C
24
C
5
4.435
C_C24:A5_C
50
-10.970
1.767
-0.010
-0.393
4.836
1
19
C
25
C
4
6.649
C_C25:G4_C
51
-17.744
0.572
0.003
-0.124
13.429
1
20
C
26
C
3
-6.501
C_A26:U3_C
52
-4.480
-0.029
0.294
0.008
18.765
1
19
C
27
C
2
0.586
C_C27:G2_C
53
-11.370
-0.265
0.273
-0.053
2.884
39.996
A
A
1
2
9.804
B
B
28
27
3.154
6.671
-0.231
-1.482
AA_GDP1G2:C27U28_BB
1
-3.053
4.487
39.345
-2.880
0.012
3.203
30.973
A
A
2
3
5.682
B
B
27
26
3.371
3.030
-0.019
-1.604
AA_G2U3:A26C27_BB
2
-0.011
0.020
30.828
-3.592
0.033
2.377
31.349
A
A
3
4
20.987
B
B
26
25
3.107
11.105
-0.056
-1.547
AA_U3G4:C25A26_BB
3
0.625
-1.182
29.356
-4.677
0.205
1.582
25.152
A
A
4
5
27.035
B
B
25
24
2.860
11.246
0.443
-1.796
AA_G4A5:C24C25_BB
4
-5.913
14.215
21.752
-6.538
-2.287
2.781
35.342
A
A
5
6
9.827
B
B
24
23
2.974
5.939
0.258
-0.894
AA_A5C6:A23C24_BB
5
-0.903
1.495
34.844
-2.250
-0.543
3.164
43.180
A
A
6
7
13.893
B
B
23
22
3.436
10.133
-0.467
-0.909
AA_C6C7:G22A23_BB
6
-2.290
3.139
41.970
-2.254
0.404
3.174
39.249
A
A
7
8
6.352
B
B
22
21
3.349
4.255
0.103
-1.493
AA_C7U8:G21G22_BB
7
2.952
-4.406
38.920
-2.731
0.199
1.748
18.804
A
A
8
9
22.267
B
B
21
20
2.900
7.085
-0.568
-2.321
AA_U8C9:G20G21_BB
8
1.927
-6.056
17.323
-9.871
2.492
2.839
32.199
A
A
9
10
14.431
B
B
20
19
3.305
7.913
-0.356
-1.618
AA_C9C10:G19G20_BB
9
-3.185
5.808
31.077
-4.269
0.099
2.696
30.890
A
A
10
11
19.905
B
B
19
18
3.558
10.401
-0.010
-2.002
AA_C10C11:G18G19_BB
10
1.291
-2.471
29.098
-5.749
0.266
2.246
34.930
A
A
11
12
23.079
B
B
18
17
3.206
13.512
0.353
-1.936
AA_C11G12:C17G18_BB
11
0.604
-1.032
32.281
-5.001
-0.509
2.834
20.379
A
A
12
13
12.743
B
B
17
16
2.654
4.460
-3.580
-0.887
AA_G12G13:G16C17_BB
12
-2.631
7.518
19.717
-4.214
9.110
3.210
48.291
A
A
13
14
7.464
B
B
16
15
3.482
6.091
-0.168
-2.096
AA_G13G14:A15G16_BB
13
-0.656
0.804
47.924
-3.049
0.152
2.832
23.692
A
A
16
17
6.153
B
B
13
12
2.936
2.522
4.315
-0.677
AA_G16C17:G12G13_BB
14
-0.094
0.230
23.559
-2.389
-10.538
2.787
27.405
A
A
17
18
13.662
B
B
12
11
3.305
6.414
-0.129
-1.854
AA_C17G18:C11G12_BB
15
0.559
-1.192
26.652
-5.412
0.403
2.714
35.128
A
A
18
19
16.865
B
B
11
10
3.391
10.037
-0.041
-1.940
AA_G18G19:C10C11_BB
16
-2.441
4.102
33.620
-4.648
-0.280
2.482
29.617
A
A
19
20
15.953
B
B
10
9
3.143
8.056
0.012
-2.055
AA_G19G20:C9C10_BB
17
0.266
-0.526
28.523
-5.512
0.027
2.205
21.424
A
A
20
21
20.830
B
B
9
8
3.174
7.568
0.887
-2.390
AA_G20G21:U8C9_BB
18
1.983
-5.459
19.960
-9.048
-1.699
2.948
36.760
A
A
21
22
12.260
B
B
8
7
3.370
7.675
0.171
-1.767
AA_G21G22:C7U8_BB
19
1.953
-3.119
35.926
-3.824
-0.011
2.575
25.446
A
A
22
23
5.453
B
B
7
6
2.932
2.378
0.465
-1.785
AA_G22A23:C6C7_BB
20
-5.820
13.346
24.670
-4.636
-2.484
3.124
50.676
A
A
23
24
3.367
B
B
6
5
3.162
2.880
0.207
-0.745
AA_A23C24:A5C6_BB
21
1.926
-2.252
50.566
-1.066
-0.111
1.881
20.836
A
A
24
25
25.193
B
B
5
4
3.091
8.821
-0.985
-2.014
AA_C24C25:G4A5_BB
22
1.507
-4.305
18.835
-8.596
3.242
3.037
31.453
A
A
25
26
8.359
B
B
4
3
3.276
4.513
-0.361
-1.245
AA_C25A26:U3G4_BB
23
2.201
-4.077
31.060
-3.116
1.067
2.790
34.722
A
A
26
27
16.100
B
B
3
2
3.304
9.490
0.199
-1.444
AA_A26C27:G2U3_BB
24
-1.548
2.627
33.403
-3.801
-0.559
3.135
40.716
A
A
27
28
2.004
B
B
2
1
3.164
1.393
0.361
-1.378
AA_C27U28:GDP1G2_BB
25
2.880
-4.143
40.595
-2.129
-0.212
2.968
35.652
C
C
2
3
1.896
C
C
27
26
3.036
1.160
-1.527
-1.692
CC_G2U3:A26C27_CC
26
0.329
-0.538
35.632
-2.919
2.538
2.643
31.746
C
C
3
4
12.990
C
C
26
25
2.930
7.044
0.845
-1.241
CC_U3G4:C25A26_CC
27
2.222
-4.098
30.896
-3.386
-1.192
2.579
24.347
C
C
4
5
16.813
C
C
25
24
3.166
6.957
0.034
-1.431
CC_G4A5:C24C25_CC
28
-4.282
10.347
22.955
-5.369
-1.297
2.792
33.835
C
C
5
6
10.035
C
C
24
23
2.989
5.811
-0.314
-0.989
CC_A5C6:A23C24_CC
29
-1.386
2.393
33.318
-2.535
0.341
3.037
41.037
C
C
6
7
7.330
C
C
23
22
3.194
5.126
-0.082
-1.131
CC_C6C7:G22A23_CC
30
-0.660
0.944
40.724
-2.147
0.049
3.042
39.397
C
C
7
8
12.524
C
C
22
21
3.451
8.383
0.005
-1.640
CC_C7U8:G21G22_CC
31
0.037
-0.056
38.529
-3.429
-0.003
1.494
25.041
C
C
8
9
29.130
C
C
21
20
2.992
12.090
-0.572
-2.213
CC_U8C9:G20G21_CC
32
2.697
-6.499
21.805
-7.740
1.907
2.695
32.806
C
C
9
10
15.857
C
C
20
19
3.249
8.850
0.858
-1.757
CC_C9C10:G19G20_CC
33
0.901
-1.615
31.609
-4.519
-1.375
2.738
29.882
C
C
10
11
15.361
C
C
19
18
3.399
7.832
-0.634
-2.139
CC_C10C11:G18G19_CC
34
-0.091
0.178
28.859
-5.701
1.211
2.495
30.199
C
C
11
12
21.090
C
C
18
17
3.306
10.756
0.110
-1.721
CC_C11G12:C17G18_CC
35
-0.700
1.372
28.252
-5.309
-0.342
3.299
24.252
C
C
12
13
6.934
C
C
17
16
2.921
2.898
-4.134
-1.083
CC_G12G13:G16C17_CC
36
-3.287
7.866
23.859
-3.458
8.843
3.272
46.375
C
C
13
14
5.460
C
C
16
15
3.498
4.293
-0.165
-2.306
CC_G13G14:A15G16_CC
37
2.067
-2.629
46.143
-3.305
0.391
2.640
34.719
C
C
14
15
9.846
C
C
15
14
3.087
5.849
0.000
-2.481
CC_G14A15:G14A15_CC
38
0.000
0.000
34.238
-4.946
0.000
3.272
46.375
C
C
15
16
5.460
C
C
14
13
3.498
4.293
0.165
-2.306
CC_A15G16:G13G14_CC
39
-2.067
2.629
46.143
-3.305
-0.391
3.299
24.252
C
C
16
17
6.934
C
C
13
12
2.921
2.898
4.134
-1.083
CC_G16C17:G12G13_CC
40
3.287
-7.866
23.859
-3.458
-8.843
2.495
30.199
C
C
17
18
21.090
C
C
12
11
3.306
10.756
-0.110
-1.721
CC_C17G18:C11G12_CC
41
0.700
-1.372
28.252
-5.309
0.342
2.738
29.882
C
C
18
19
15.361
C
C
11
10
3.399
7.832
0.634
-2.139
CC_G18G19:C10C11_CC
42
0.091
-0.178
28.859
-5.701
-1.211
2.695
32.806
C
C
19
20
15.857
C
C
10
9
3.249
8.850
-0.858
-1.757
CC_G19G20:C9C10_CC
43
-0.901
1.615
31.609
-4.519
1.375
1.494
25.041
C
C
20
21
29.130
C
C
9
8
2.992
12.090
0.572
-2.213
CC_G20G21:U8C9_CC
44
-2.697
6.499
21.805
-7.740
-1.907
3.042
39.397
C
C
21
22
12.524
C
C
8
7
3.451
8.383
-0.005
-1.640
CC_G21G22:C7U8_CC
45
-0.037
0.056
38.529
-3.429
0.003
3.037
41.037
C
C
22
23
7.330
C
C
7
6
3.194
5.126
0.082
-1.131
CC_G22A23:C6C7_CC
46
0.660
-0.944
40.724
-2.147
-0.049
2.792
33.835
C
C
23
24
10.035
C
C
6
5
2.989
5.811
0.314
-0.989
CC_A23C24:A5C6_CC
47
1.386
-2.393
33.318
-2.535
-0.341
2.579
24.347
C
C
24
25
16.813
C
C
5
4
3.166
6.957
-0.034
-1.431
CC_C24C25:G4A5_CC
48
4.282
-10.347
22.955
-5.369
1.297
2.643
31.746
C
C
25
26
12.990
C
C
4
3
2.930
7.044
-0.845
-1.241
CC_C25A26:U3G4_CC
49
-2.222
4.098
30.897
-3.386
1.192
2.968
35.652
C
C
26
27
1.896
C
C
3
2
3.036
1.160
1.527
-1.692
CC_A26C27:G2U3_CC
50
-0.329
0.538
35.632
-2.919
-2.538
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
1999-12-02
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.ptnr2_auth_asym_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_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_conn_type.id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
N
RCSB
Y
RCSB
1999-10-05
REL
REL
MG
MAGNESIUM ION
HOH
water
THE RNA WAS PRODUCED BY T7 RNA POLYMERASE IN VITRO TRANSCRIPTION USING RIBOZYME TECHNOLOGY. THIS SEQUENCE OCCURS NATURALLY IN HUMANS
sample
THE RNA WAS PRODUCED BY T7 RNA POLYMERASE IN VITRO TRANSCRIPTION USING RIBOZYME TECHNOLOGY. THIS SEQUENCE OCCURS NATURALLY IN HUMANS
sample
MO3
304
3
MG
MG
304
A
MO3
305
3
MG
MG
305
A
MO4
302
3
MG
MG
302
B
MO3
303
3
MG
MG
303
B
MO4
301
3
MG
MG
301
C
HOH
101
4
HOH
HOH
101
A
HOH
109
4
HOH
HOH
109
A
HOH
110
4
HOH
HOH
110
A
HOH
111
4
HOH
HOH
111
A
HOH
112
4
HOH
HOH
112
A
HOH
115
4
HOH
HOH
115
A
HOH
116
4
HOH
HOH
116
A
HOH
121
4
HOH
HOH
121
A
HOH
123
4
HOH
HOH
123
A
HOH
126
4
HOH
HOH
126
A
HOH
127
4
HOH
HOH
127
A
HOH
128
4
HOH
HOH
128
A
HOH
129
4
HOH
HOH
129
A
HOH
131
4
HOH
HOH
131
A
HOH
132
4
HOH
HOH
132
A
HOH
133
4
HOH
HOH
133
A
HOH
134
4
HOH
HOH
134
A
HOH
136
4
HOH
HOH
136
A
HOH
139
4
HOH
HOH
139
A
HOH
141
4
HOH
HOH
141
A
HOH
145
4
HOH
HOH
145
A
HOH
147
4
HOH
HOH
147
A
HOH
150
4
HOH
HOH
150
A
HOH
158
4
HOH
HOH
158
A
HOH
161
4
HOH
HOH
161
A
HOH
165
4
HOH
HOH
165
A
HOH
170
4
HOH
HOH
170
A
HOH
173
4
HOH
HOH
173
A
HOH
175
4
HOH
HOH
175
A
HOH
176
4
HOH
HOH
176
A
HOH
181
4
HOH
HOH
181
A
HOH
182
4
HOH
HOH
182
A
HOH
184
4
HOH
HOH
184
A
HOH
185
4
HOH
HOH
185
A
HOH
186
4
HOH
HOH
186
A
HOH
189
4
HOH
HOH
189
A
HOH
193
4
HOH
HOH
193
A
HOH
195
4
HOH
HOH
195
A
HOH
196
4
HOH
HOH
196
A
HOH
200
4
HOH
HOH
200
A
HOH
201
4
HOH
HOH
201
A
HOH
203
4
HOH
HOH
203
A
HOH
205
4
HOH
HOH
205
A
MO3
303
4
HOH
HOH
315
A
MO3
303
4
HOH
HOH
316
A
MO3
304
4
HOH
HOH
317
A
MO3
304
4
HOH
HOH
318
A
MO3
304
4
HOH
HOH
319
A
MO3
305
4
HOH
HOH
320
A
MO3
305
4
HOH
HOH
321
A
MO3
305
4
HOH
HOH
322
A
HOH
103
4
HOH
HOH
103
B
HOH
104
4
HOH
HOH
104
B
HOH
106
4
HOH
HOH
106
B
HOH
108
4
HOH
HOH
108
B
HOH
113
4
HOH
HOH
113
B
HOH
117
4
HOH
HOH
117
B
HOH
118
4
HOH
HOH
118
B
HOH
125
4
HOH
HOH
125
B
HOH
130
4
HOH
HOH
130
B
HOH
140
4
HOH
HOH
140
B
HOH
142
4
HOH
HOH
142
B
HOH
144
4
HOH
HOH
144
B
HOH
146
4
HOH
HOH
146
B
HOH
148
4
HOH
HOH
148
B
HOH
149
4
HOH
HOH
149
B
HOH
151
4
HOH
HOH
151
B
HOH
153
4
HOH
HOH
153
B
HOH
157
4
HOH
HOH
157
B
HOH
163
4
HOH
HOH
163
B
HOH
166
4
HOH
HOH
166
B
HOH
167
4
HOH
HOH
167
B
HOH
169
4
HOH
HOH
169
B
HOH
172
4
HOH
HOH
172
B
HOH
174
4
HOH
HOH
174
B
HOH
179
4
HOH
HOH
179
B
HOH
180
4
HOH
HOH
180
B
HOH
191
4
HOH
HOH
191
B
HOH
192
4
HOH
HOH
192
B
HOH
197
4
HOH
HOH
197
B
HOH
199
4
HOH
HOH
199
B
HOH
204
4
HOH
HOH
204
B
MO4
302
4
HOH
HOH
310
B
MO4
302
4
HOH
HOH
311
B
MO4
302
4
HOH
HOH
312
B
MO4
302
4
HOH
HOH
313
B
MO3
303
4
HOH
HOH
314
B
HOH
102
4
HOH
HOH
102
C
HOH
105
4
HOH
HOH
105
C
HOH
107
4
HOH
HOH
107
C
HOH
114
4
HOH
HOH
114
C
HOH
119
4
HOH
HOH
119
C
HOH
120
4
HOH
HOH
120
C
HOH
122
4
HOH
HOH
122
C
HOH
124
4
HOH
HOH
124
C
HOH
135
4
HOH
HOH
135
C
HOH
137
4
HOH
HOH
137
C
HOH
138
4
HOH
HOH
138
C
HOH
143
4
HOH
HOH
143
C
HOH
152
4
HOH
HOH
152
C
HOH
154
4
HOH
HOH
154
C
HOH
155
4
HOH
HOH
155
C
HOH
156
4
HOH
HOH
156
C
HOH
159
4
HOH
HOH
159
C
HOH
160
4
HOH
HOH
160
C
HOH
162
4
HOH
HOH
162
C
HOH
164
4
HOH
HOH
164
C
HOH
168
4
HOH
HOH
168
C
HOH
171
4
HOH
HOH
171
C
HOH
177
4
HOH
HOH
177
C
HOH
178
4
HOH
HOH
178
C
HOH
183
4
HOH
HOH
183
C
HOH
187
4
HOH
HOH
187
C
HOH
188
4
HOH
HOH
188
C
HOH
190
4
HOH
HOH
190
C
HOH
194
4
HOH
HOH
194
C
HOH
198
4
HOH
HOH
198
C
HOH
202
4
HOH
HOH
202
C
MO4
301
4
HOH
HOH
306
C
MO4
301
4
HOH
HOH
307
C
MO4
301
4
HOH
HOH
308
C
MO4
301
4
HOH
HOH
309
C
GDP
1
n
1
GDP
1
A
G
2
n
2
G
2
A
U
3
n
3
U
3
A
G
4
n
4
G
4
A
A
5
n
5
A
5
A
C
6
n
6
C
6
A
C
7
n
7
C
7
A
U
8
n
8
U
8
A
C
9
n
9
C
9
A
C
10
n
10
C
10
A
C
11
n
11
C
11
A
G
12
n
12
G
12
A
G
13
n
13
G
13
A
G
14
n
14
G
14
A
A
15
n
15
A
15
A
G
16
n
16
G
16
A
C
17
n
17
C
17
A
G
18
n
18
G
18
A
G
19
n
19
G
19
A
G
20
n
20
G
20
A
G
21
n
21
G
21
A
G
22
n
22
G
22
A
A
23
n
23
A
23
A
C
24
n
24
C
24
A
C
25
n
25
C
25
A
A
26
n
26
A
26
A
C
27
n
27
C
27
A
U
28
n
28
U
28
A
A23
29
n
29
A23
29
A
GDP
1
n
1
GDP
1
B
G
2
n
2
G
2
B
U
3
n
3
U
3
B
G
4
n
4
G
4
B
A
5
n
5
A
5
B
C
6
n
6
C
6
B
C
7
n
7
C
7
B
U
8
n
8
U
8
B
C
9
n
9
C
9
B
C
10
n
10
C
10
B
C
11
n
11
C
11
B
G
12
n
12
G
12
B
G
13
n
13
G
13
B
G
14
n
14
G
14
B
A
15
n
15
A
15
B
G
16
n
16
G
16
B
C
17
n
17
C
17
B
G
18
n
18
G
18
B
G
19
n
19
G
19
B
G
20
n
20
G
20
B
G
21
n
21
G
21
B
G
22
n
22
G
22
B
A
23
n
23
A
23
B
C
24
n
24
C
24
B
C
25
n
25
C
25
B
A
26
n
26
A
26
B
C
27
n
27
C
27
B
U
28
n
28
U
28
B
A
29
n
29
A
29
B
GDP
1
n
1
GDP
1
C
G
2
n
2
G
2
C
U
3
n
3
U
3
C
G
4
n
4
G
4
C
A
5
n
5
A
5
C
C
6
n
6
C
6
C
C
7
n
7
C
7
C
U
8
n
8
U
8
C
C
9
n
9
C
9
C
C
10
n
10
C
10
C
C
11
n
11
C
11
C
G
12
n
12
G
12
C
G
13
n
13
G
13
C
G
14
n
14
G
14
C
A
15
n
15
A
15
C
G
16
n
16
G
16
C
C
17
n
17
C
17
C
G
18
n
18
G
18
C
G
19
n
19
G
19
C
G
20
n
20
G
20
C
G
21
n
21
G
21
C
G
22
n
22
G
22
C
A
23
n
23
A
23
C
C
24
n
24
C
24
C
C
25
n
25
C
25
C
A
26
n
26
A
26
C
C
27
n
27
C
27
C
U
28
n
28
U
28
C
A
29
n
29
A
29
C
author_defined_assembly
2
dimeric
author_defined_assembly
2
dimeric
A
GDP
1
A
N7
GDP
1
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
317
I
O
HOH
1_555
84.1
A
GDP
1
A
N7
GDP
1
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
318
I
O
HOH
1_555
141.9
A
HOH
317
I
O
HOH
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
318
I
O
HOH
1_555
131.9
A
GDP
1
A
N7
GDP
1
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
319
I
O
HOH
1_555
103.4
A
HOH
317
I
O
HOH
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
319
I
O
HOH
1_555
81.1
A
HOH
318
I
O
HOH
1_555
A
MG
304
D
MG
MG
1_555
A
HOH
319
I
O
HOH
1_555
75.5
A
HOH
320
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
A
HOH
321
I
O
HOH
1_555
133.4
A
HOH
320
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
A
HOH
322
I
O
HOH
1_555
65.7
A
HOH
321
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
A
HOH
322
I
O
HOH
1_555
99.2
A
HOH
320
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
GDP
1
B
O2A
GDP
1
2_545
73.2
A
HOH
321
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
GDP
1
B
O2A
GDP
1
2_545
122.5
A
HOH
322
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
GDP
1
B
O2A
GDP
1
2_545
135.1
A
HOH
320
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
G
2
B
N7
G
2
2_545
129.1
A
HOH
321
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
G
2
B
N7
G
2
2_545
88.1
A
HOH
322
I
O
HOH
1_555
A
MG
305
E
MG
MG
1_555
B
G
2
B
N7
G
2
2_545
82.1
B
GDP
1
B
O2A
GDP
1
2_545
A
MG
305
E
MG
MG
1_555
B
G
2
B
N7
G
2
2_545
112.5
A
HOH
315
I
O
HOH
1_555
B
MG
303
G
MG
MG
1_555
A
HOH
316
I
O
HOH
1_555
92.6
A
HOH
315
I
O
HOH
1_555
B
MG
303
G
MG
MG
1_555
B
HOH
314
J
O
HOH
1_555
92.8
A
HOH
316
I
O
HOH
1_555
B
MG
303
G
MG
MG
1_555
B
HOH
314
J
O
HOH
1_555
91.7
B
G
19
B
N7
G
19
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
310
J
O
HOH
1_555
88.8
B
G
19
B
N7
G
19
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
311
J
O
HOH
1_555
120.5
B
HOH
310
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
311
J
O
HOH
1_555
150.6
B
G
19
B
N7
G
19
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
312
J
O
HOH
1_555
117.2
B
HOH
310
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
312
J
O
HOH
1_555
60.6
B
HOH
311
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
312
J
O
HOH
1_555
103.7
B
G
19
B
N7
G
19
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
313
J
O
HOH
1_555
87.8
B
HOH
310
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
313
J
O
HOH
1_555
144.1
B
HOH
311
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
313
J
O
HOH
1_555
49.5
B
HOH
312
J
O
HOH
1_555
B
MG
302
F
MG
MG
1_555
B
HOH
313
J
O
HOH
1_555
89.7
C
HOH
306
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
307
K
O
HOH
1_555
142.4
C
HOH
306
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
308
K
O
HOH
1_555
87.4
C
HOH
307
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
308
K
O
HOH
1_555
65.4
C
HOH
306
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
309
K
O
HOH
1_555
76.2
C
HOH
307
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
309
K
O
HOH
1_555
70.3
C
HOH
308
K
O
HOH
1_555
C
MG
301
H
MG
MG
1_555
C
HOH
309
K
O
HOH
1_555
69.2
A
GDP
1
GUANOSINE-5'-DIPHOSPHATE
A
GDP
1
G
A
A23
29
A
A23
29
A
B
GDP
1
GUANOSINE-5'-DIPHOSPHATE
B
GDP
1
G
C
GDP
1
GUANOSINE-5'-DIPHOSPHATE
C
GDP
1
G
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
-0.5000000000
-0.8660254038
0.0000000000
-0.8660254038
0.5000000000
0.0000000000
0.0000000000
0.0000000000
-1.0000000000
6_555
-x,-x+y,-z+1/3
crystal symmetry operation
0.0000000000
0.0000000000
77.1400000000
1
B
C5'
A
29
B
C5'
A
29
1
Y
1
B
C4'
A
29
B
C4'
A
29
1
Y
1
B
O4'
A
29
B
O4'
A
29
1
Y
1
B
C3'
A
29
B
C3'
A
29
1
Y
1
B
O3'
A
29
B
O3'
A
29
1
Y
1
B
C2'
A
29
B
C2'
A
29
1
Y
1
B
O2'
A
29
B
O2'
A
29
1
Y
1
B
C1'
A
29
B
C1'
A
29
1
Y
1
B
N9
A
29
B
N9
A
29
1
Y
1
B
C8
A
29
B
C8
A
29
1
Y
1
B
N7
A
29
B
N7
A
29
1
Y
1
B
C5
A
29
B
C5
A
29
1
Y
1
B
C6
A
29
B
C6
A
29
1
Y
1
B
N6
A
29
B
N6
A
29
1
Y
1
B
N1
A
29
B
N1
A
29
1
Y
1
B
C2
A
29
B
C2
A
29
1
Y
1
B
N3
A
29
B
N3
A
29
1
Y
1
B
C4
A
29
B
C4
A
29
1
Y
1
C
N9
GDP
1
C
N9
GDP
1
1
Y
1
C
C8
GDP
1
C
C8
GDP
1
1
Y
1
C
N7
GDP
1
C
N7
GDP
1
1
Y
1
C
C5
GDP
1
C
C5
GDP
1
1
Y
1
C
C6
GDP
1
C
C6
GDP
1
1
Y
1
C
O6
GDP
1
C
O6
GDP
1
1
Y
1
C
N1
GDP
1
C
N1
GDP
1
1
Y
1
C
C2
GDP
1
C
C2
GDP
1
1
Y
1
C
N2
GDP
1
C
N2
GDP
1
1
Y
1
C
N3
GDP
1
C
N3
GDP
1
1
Y
1
C
C4
GDP
1
C
C4
GDP
1
1
Y
1
C
C5'
A
29
C
C5'
A
29
1
Y
1
C
C4'
A
29
C
C4'
A
29
1
Y
1
C
O4'
A
29
C
O4'
A
29
1
Y
1
C
C3'
A
29
C
C3'
A
29
1
Y
1
C
O3'
A
29
C
O3'
A
29
1
Y
1
C
C2'
A
29
C
C2'
A
29
1
Y
1
C
O2'
A
29
C
O2'
A
29
1
Y
1
C
C1'
A
29
C
C1'
A
29
1
Y
1
C
N9
A
29
C
N9
A
29
1
Y
1
C
C8
A
29
C
C8
A
29
1
Y
1
C
N7
A
29
C
N7
A
29
1
Y
1
C
C5
A
29
C
C5
A
29
1
Y
1
C
C6
A
29
C
C6
A
29
1
Y
1
C
N6
A
29
C
N6
A
29
1
Y
1
C
N1
A
29
C
N1
A
29
1
Y
1
C
C2
A
29
C
C2
A
29
1
Y
1
C
N3
A
29
C
N3
A
29
1
Y
1
C
C4
A
29
C
C4
A
29
1
Y
1
B
B
O
O
HOH
HOH
311
313
1.76
1
B
B
O
O
HOH
HOH
310
312
2.12
DNA-RNA-ALLATOM-MOD.PARAM
DNA-RNA-ALLATOM-MOD.TOP
MG-MOD.PARAM
MG-MOD.TOP
WATER_REP.PARA
WATER.TOP
59.4
8.72
1.23
0.00
8.72
0.00
-17.45
NO RESTRAINTS WERE USED FOR NCS OR RNA GEOMETRY
0.288
0.010
0.264
0.275
0.264
2.00
38.57
859
17808
17808
4.8
99.7
RANDOM
929754.01
0.00
1
RESTRAINED
THROUGHOUT
0.0
0.0
FLAT MODEL
67.59
0.374
0.51
0.37
5.00
0.59
0.43
2.00
38.57
122
2177
25
2030
0
0.005
0.92
0.0
0.54
0.457
0.038
0.403
2.13
144
2756
6
5.0
99.6
38.8
2.0
76
1D4R
17877
17877
0
0
0.051
1
6.4
4.8
99.9
0.398
2.00
2.05
3.2
100
data reduction
MOSFLM
data reduction
TRUNCATE
phasing
SOLVE
refinement
CNS
data scaling
CCP4
(TRUNCATE)
29-mer fragment of human srp rna helix 6
1
N
N
2
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
4
N
N
4
N
N
4
N
N
covale
1.603
both
A
GDP
1
A
O3'
GDP
1
1_555
A
G
2
A
P
G
2
1_555
covale
1.613
both
A
U
28
A
O3'
U
28
1_555
A
A23
29
A
P
A23
29
1_555
covale
1.610
both
B
GDP
1
B
O3'
GDP
1
1_555
B
G
2
B
P
G
2
1_555
covale
1.608
both
C
GDP
1
C
O3'
GDP
1
1_555
C
G
2
C
P
G
2
1_555
metalc
2.862
A
GDP
1
A
N7
GDP
1
1_555
A
MG
304
D
MG
MG
1_555
metalc
2.101
A
MG
304
D
MG
MG
1_555
A
HOH
317
I
O
HOH
1_555
metalc
2.096
A
MG
304
D
MG
MG
1_555
A
HOH
318
I
O
HOH
1_555
metalc
2.104
A
MG
304
D
MG
MG
1_555
A
HOH
319
I
O
HOH
1_555
metalc
2.094
A
MG
305
E
MG
MG
1_555
A
HOH
320
I
O
HOH
1_555
metalc
2.104
A
MG
305
E
MG
MG
1_555
A
HOH
321
I
O
HOH
1_555
metalc
2.102
A
MG
305
E
MG
MG
1_555
A
HOH
322
I
O
HOH
1_555
metalc
2.724
A
MG
305
E
MG
MG
1_555
B
GDP
1
B
O2A
GDP
1
2_545
metalc
3.111
A
MG
305
E
MG
MG
1_555
B
G
2
B
N7
G
2
2_545
metalc
2.105
A
HOH
315
I
O
HOH
1_555
B
MG
303
G
MG
MG
1_555
metalc
2.102
A
HOH
316
I
O
HOH
1_555
B
MG
303
G
MG
MG
1_555
metalc
2.872
B
G
19
B
N7
G
19
1_555
B
MG
302
F
MG
MG
1_555
metalc
2.102
B
MG
302
F
MG
MG
1_555
B
HOH
310
J
O
HOH
1_555
metalc
2.106
B
MG
302
F
MG
MG
1_555
B
HOH
311
J
O
HOH
1_555
metalc
2.103
B
MG
302
F
MG
MG
1_555
B
HOH
312
J
O
HOH
1_555
metalc
2.095
B
MG
302
F
MG
MG
1_555
B
HOH
313
J
O
HOH
1_555
metalc
2.101
B
MG
303
G
MG
MG
1_555
B
HOH
314
J
O
HOH
1_555
metalc
2.098
C
MG
301
H
MG
MG
1_555
C
HOH
306
K
O
HOH
1_555
metalc
2.103
C
MG
301
H
MG
MG
1_555
C
HOH
307
K
O
HOH
1_555
metalc
2.105
C
MG
301
H
MG
MG
1_555
C
HOH
308
K
O
HOH
1_555
metalc
2.104
C
MG
301
H
MG
MG
1_555
C
HOH
309
K
O
HOH
1_555
hydrog
TYPE_28_PAIR
A
GDP
1
A
N1
GDP
1
1_555
B
U
28
B
O2
U
28
1_555
hydrog
TYPE_28_PAIR
A
GDP
1
A
O6
GDP
1
1_555
B
U
28
B
N3
U
28
1_555
hydrog
WATSON-CRICK
A
G
2
A
N1
G
2
1_555
B
C
27
B
N3
C
27
1_555
hydrog
WATSON-CRICK
A
G
2
A
N2
G
2
1_555
B
C
27
B
O2
C
27
1_555
hydrog
WATSON-CRICK
A
G
2
A
O6
G
2
1_555
B
C
27
B
N4
C
27
1_555
hydrog
WATSON-CRICK
A
U
3
A
N3
U
3
1_555
B
A
26
B
N1
A
26
1_555
hydrog
WATSON-CRICK
A
U
3
A
O4
U
3
1_555
B
A
26
B
N6
A
26
1_555
hydrog
WATSON-CRICK
A
G
4
A
N1
G
4
1_555
B
C
25
B
N3
C
25
1_555
hydrog
WATSON-CRICK
A
G
4
A
N2
G
4
1_555
B
C
25
B
O2
C
25
1_555
hydrog
WATSON-CRICK
A
G
4
A
O6
G
4
1_555
B
C
25
B
N4
C
25
1_555
hydrog
A-C MISPAIR
A
A
5
A
N6
A
5
1_555
B
C
24
B
O2
C
24
1_555
hydrog
C-A MISPAIR
A
C
6
A
N4
C
6
1_555
B
A
23
B
N1
A
23
1_555
hydrog
WATSON-CRICK
A
C
7
A
N3
C
7
1_555
B
G
22
B
N1
G
22
1_555
hydrog
WATSON-CRICK
A
C
7
A
N4
C
7
1_555
B
G
22
B
O6
G
22
1_555
hydrog
WATSON-CRICK
A
C
7
A
O2
C
7
1_555
B
G
22
B
N2
G
22
1_555
hydrog
TYPE_28_PAIR
A
U
8
A
N3
U
8
1_555
B
G
21
B
O6
G
21
1_555
hydrog
TYPE_28_PAIR
A
U
8
A
O2
U
8
1_555
B
G
21
B
N1
G
21
1_555
hydrog
WATSON-CRICK
A
C
9
A
N3
C
9
1_555
B
G
20
B
N1
G
20
1_555
hydrog
WATSON-CRICK
A
C
9
A
N4
C
9
1_555
B
G
20
B
O6
G
20
1_555
hydrog
WATSON-CRICK
A
C
9
A
O2
C
9
1_555
B
G
20
B
N2
G
20
1_555
hydrog
WATSON-CRICK
A
C
10
A
N3
C
10
1_555
B
G
19
B
N1
G
19
1_555
hydrog
WATSON-CRICK
A
C
10
A
N4
C
10
1_555
B
G
19
B
O6
G
19
1_555
hydrog
WATSON-CRICK
A
C
10
A
O2
C
10
1_555
B
G
19
B
N2
G
19
1_555
hydrog
WATSON-CRICK
A
C
11
A
N3
C
11
1_555
B
G
18
B
N1
G
18
1_555
hydrog
WATSON-CRICK
A
C
11
A
N4
C
11
1_555
B
G
18
B
O6
G
18
1_555
hydrog
WATSON-CRICK
A
C
11
A
O2
C
11
1_555
B
G
18
B
N2
G
18
1_555
hydrog
WATSON-CRICK
A
G
12
A
N1
G
12
1_555
B
C
17
B
N3
C
17
1_555
hydrog
WATSON-CRICK
A
G
12
A
N2
G
12
1_555
B
C
17
B
O2
C
17
1_555
hydrog
WATSON-CRICK
A
G
12
A
O6
G
12
1_555
B
C
17
B
N4
C
17
1_555
hydrog
G-G MISPAIR
A
G
13
A
O6
G
13
1_555
B
G
16
B
N1
G
16
1_555
hydrog
G-A MISPAIR
A
G
14
A
O6
G
14
1_555
B
A
15
B
N6
A
15
1_555
hydrog
G-G MISPAIR
A
G
16
A
N1
G
16
1_555
B
G
13
B
O6
G
13
1_555
hydrog
WATSON-CRICK
A
C
17
A
N3
C
17
1_555
B
G
12
B
N1
G
12
1_555
hydrog
WATSON-CRICK
A
C
17
A
N4
C
17
1_555
B
G
12
B
O6
G
12
1_555
hydrog
WATSON-CRICK
A
C
17
A
O2
C
17
1_555
B
G
12
B
N2
G
12
1_555
hydrog
WATSON-CRICK
A
G
18
A
N1
G
18
1_555
B
C
11
B
N3
C
11
1_555
hydrog
WATSON-CRICK
A
G
18
A
N2
G
18
1_555
B
C
11
B
O2
C
11
1_555
hydrog
WATSON-CRICK
A
G
18
A
O6
G
18
1_555
B
C
11
B
N4
C
11
1_555
hydrog
WATSON-CRICK
A
G
19
A
N1
G
19
1_555
B
C
10
B
N3
C
10
1_555
hydrog
WATSON-CRICK
A
G
19
A
N2
G
19
1_555
B
C
10
B
O2
C
10
1_555
hydrog
WATSON-CRICK
A
G
19
A
O6
G
19
1_555
B
C
10
B
N4
C
10
1_555
hydrog
WATSON-CRICK
A
G
20
A
N1
G
20
1_555
B
C
9
B
N3
C
9
1_555
hydrog
WATSON-CRICK
A
G
20
A
N2
G
20
1_555
B
C
9
B
O2
C
9
1_555
hydrog
WATSON-CRICK
A
G
20
A
O6
G
20
1_555
B
C
9
B
N4
C
9
1_555
hydrog
TYPE_28_PAIR
A
G
21
A
N1
G
21
1_555
B
U
8
B
O2
U
8
1_555
hydrog
TYPE_28_PAIR
A
G
21
A
O6
G
21
1_555
B
U
8
B
N3
U
8
1_555
hydrog
WATSON-CRICK
A
G
22
A
N1
G
22
1_555
B
C
7
B
N3
C
7
1_555
hydrog
WATSON-CRICK
A
G
22
A
N2
G
22
1_555
B
C
7
B
O2
C
7
1_555
hydrog
WATSON-CRICK
A
G
22
A
O6
G
22
1_555
B
C
7
B
N4
C
7
1_555
hydrog
A-C MISPAIR
A
A
23
A
N6
A
23
1_555
B
C
6
B
N3
C
6
1_555
hydrog
C-A MISPAIR
A
C
24
A
N3
C
24
1_555
B
A
5
B
N6
A
5
1_555
hydrog
WATSON-CRICK
A
C
25
A
N3
C
25
1_555
B
G
4
B
N1
G
4
1_555
hydrog
WATSON-CRICK
A
C
25
A
N4
C
25
1_555
B
G
4
B
O6
G
4
1_555
hydrog
WATSON-CRICK
A
C
25
A
O2
C
25
1_555
B
G
4
B
N2
G
4
1_555
hydrog
WATSON-CRICK
A
A
26
A
N1
A
26
1_555
B
U
3
B
N3
U
3
1_555
hydrog
WATSON-CRICK
A
A
26
A
N6
A
26
1_555
B
U
3
B
O4
U
3
1_555
hydrog
WATSON-CRICK
A
C
27
A
N3
C
27
1_555
B
G
2
B
N1
G
2
1_555
hydrog
WATSON-CRICK
A
C
27
A
N4
C
27
1_555
B
G
2
B
O6
G
2
1_555
hydrog
WATSON-CRICK
A
C
27
A
O2
C
27
1_555
B
G
2
B
N2
G
2
1_555
hydrog
TYPE_28_PAIR
A
U
28
A
N3
U
28
1_555
B
GDP
1
B
O6
GDP
1
1_555
hydrog
TYPE_28_PAIR
A
U
28
A
O2
U
28
1_555
B
GDP
1
B
N1
GDP
1
1_555
hydrog
WATSON-CRICK
C
G
2
C
N1
G
2
1_555
C
C
27
C
N3
C
27
6_555
hydrog
WATSON-CRICK
C
G
2
C
N2
G
2
1_555
C
C
27
C
O2
C
27
6_555
hydrog
WATSON-CRICK
C
G
2
C
O6
G
2
1_555
C
C
27
C
N4
C
27
6_555
hydrog
WATSON-CRICK
C
U
3
C
N3
U
3
1_555
C
A
26
C
N1
A
26
6_555
hydrog
WATSON-CRICK
C
U
3
C
O4
U
3
1_555
C
A
26
C
N6
A
26
6_555
hydrog
WATSON-CRICK
C
G
4
C
N1
G
4
1_555
C
C
25
C
N3
C
25
6_555
hydrog
WATSON-CRICK
C
G
4
C
N2
G
4
1_555
C
C
25
C
O2
C
25
6_555
hydrog
WATSON-CRICK
C
G
4
C
O6
G
4
1_555
C
C
25
C
N4
C
25
6_555
hydrog
A-C MISPAIR
C
A
5
C
N6
A
5
1_555
C
C
24
C
N3
C
24
6_555
hydrog
C-A MISPAIR
C
C
6
C
N4
C
6
1_555
C
A
23
C
N1
A
23
6_555
hydrog
WATSON-CRICK
C
C
7
C
N3
C
7
1_555
C
G
22
C
N1
G
22
6_555
hydrog
WATSON-CRICK
C
C
7
C
N4
C
7
1_555
C
G
22
C
O6
G
22
6_555
hydrog
WATSON-CRICK
C
C
7
C
O2
C
7
1_555
C
G
22
C
N2
G
22
6_555
hydrog
TYPE_28_PAIR
C
U
8
C
N3
U
8
1_555
C
G
21
C
O6
G
21
6_555
hydrog
TYPE_28_PAIR
C
U
8
C
O2
U
8
1_555
C
G
21
C
N1
G
21
6_555
hydrog
WATSON-CRICK
C
C
9
C
N3
C
9
1_555
C
G
20
C
N1
G
20
6_555
hydrog
WATSON-CRICK
C
C
9
C
N4
C
9
1_555
C
G
20
C
O6
G
20
6_555
hydrog
WATSON-CRICK
C
C
9
C
O2
C
9
1_555
C
G
20
C
N2
G
20
6_555
hydrog
WATSON-CRICK
C
C
10
C
N3
C
10
1_555
C
G
19
C
N1
G
19
6_555
hydrog
WATSON-CRICK
C
C
10
C
N4
C
10
1_555
C
G
19
C
O6
G
19
6_555
hydrog
WATSON-CRICK
C
C
10
C
O2
C
10
1_555
C
G
19
C
N2
G
19
6_555
hydrog
WATSON-CRICK
C
C
11
C
N3
C
11
1_555
C
G
18
C
N1
G
18
6_555
hydrog
WATSON-CRICK
C
C
11
C
N4
C
11
1_555
C
G
18
C
O6
G
18
6_555
hydrog
WATSON-CRICK
C
C
11
C
O2
C
11
1_555
C
G
18
C
N2
G
18
6_555
hydrog
WATSON-CRICK
C
G
12
C
N1
G
12
1_555
C
C
17
C
N3
C
17
6_555
hydrog
WATSON-CRICK
C
G
12
C
N2
G
12
1_555
C
C
17
C
O2
C
17
6_555
hydrog
WATSON-CRICK
C
G
12
C
O6
G
12
1_555
C
C
17
C
N4
C
17
6_555
hydrog
G-G MISPAIR
C
G
13
C
O6
G
13
1_555
C
G
16
C
N1
G
16
6_555
hydrog
G-A MISPAIR
C
G
14
C
O6
G
14
1_555
C
A
15
C
N6
A
15
6_555
hydrog
A-G MISPAIR
C
A
15
C
N6
A
15
1_555
C
G
14
C
O6
G
14
6_555
hydrog
G-G MISPAIR
C
G
16
C
N1
G
16
1_555
C
G
13
C
O6
G
13
6_555
hydrog
WATSON-CRICK
C
C
17
C
N3
C
17
1_555
C
G
12
C
N1
G
12
6_555
hydrog
WATSON-CRICK
C
C
17
C
N4
C
17
1_555
C
G
12
C
O6
G
12
6_555
hydrog
WATSON-CRICK
C
C
17
C
O2
C
17
1_555
C
G
12
C
N2
G
12
6_555
hydrog
WATSON-CRICK
C
G
18
C
N1
G
18
1_555
C
C
11
C
N3
C
11
6_555
hydrog
WATSON-CRICK
C
G
18
C
N2
G
18
1_555
C
C
11
C
O2
C
11
6_555
hydrog
WATSON-CRICK
C
G
18
C
O6
G
18
1_555
C
C
11
C
N4
C
11
6_555
hydrog
WATSON-CRICK
C
G
19
C
N1
G
19
1_555
C
C
10
C
N3
C
10
6_555
hydrog
WATSON-CRICK
C
G
19
C
N2
G
19
1_555
C
C
10
C
O2
C
10
6_555
hydrog
WATSON-CRICK
C
G
19
C
O6
G
19
1_555
C
C
10
C
N4
C
10
6_555
hydrog
WATSON-CRICK
C
G
20
C
N1
G
20
1_555
C
C
9
C
N3
C
9
6_555
hydrog
WATSON-CRICK
C
G
20
C
N2
G
20
1_555
C
C
9
C
O2
C
9
6_555
hydrog
WATSON-CRICK
C
G
20
C
O6
G
20
1_555
C
C
9
C
N4
C
9
6_555
hydrog
TYPE_28_PAIR
C
G
21
C
N1
G
21
1_555
C
U
8
C
O2
U
8
6_555
hydrog
TYPE_28_PAIR
C
G
21
C
O6
G
21
1_555
C
U
8
C
N3
U
8
6_555
hydrog
WATSON-CRICK
C
G
22
C
N1
G
22
1_555
C
C
7
C
N3
C
7
6_555
hydrog
WATSON-CRICK
C
G
22
C
N2
G
22
1_555
C
C
7
C
O2
C
7
6_555
hydrog
WATSON-CRICK
C
G
22
C
O6
G
22
1_555
C
C
7
C
N4
C
7
6_555
hydrog
A-C MISPAIR
C
A
23
C
N1
A
23
1_555
C
C
6
C
N4
C
6
6_555
hydrog
C-A MISPAIR
C
C
24
C
N3
C
24
1_555
C
A
5
C
N6
A
5
6_555
hydrog
WATSON-CRICK
C
C
25
C
N3
C
25
1_555
C
G
4
C
N1
G
4
6_555
hydrog
WATSON-CRICK
C
C
25
C
N4
C
25
1_555
C
G
4
C
O6
G
4
6_555
hydrog
WATSON-CRICK
C
C
25
C
O2
C
25
1_555
C
G
4
C
N2
G
4
6_555
hydrog
WATSON-CRICK
C
A
26
C
N1
A
26
1_555
C
U
3
C
N3
U
3
6_555
hydrog
WATSON-CRICK
C
A
26
C
N6
A
26
1_555
C
U
3
C
O4
U
3
6_555
hydrog
WATSON-CRICK
C
C
27
C
N3
C
27
1_555
C
G
2
C
N1
G
2
6_555
hydrog
WATSON-CRICK
C
C
27
C
N4
C
27
1_555
C
G
2
C
O6
G
2
6_555
hydrog
WATSON-CRICK
C
C
27
C
O2
C
27
1_555
C
G
2
C
N2
G
2
6_555
RNA
A-RNA HELIX, GGAG/GAGG BULGE, AC/CA TANDEM MISMATCH, GU WOBBLE BASE PAIRS, 2'3' -CYCLIC PHOSPHATE, RNA
1D4R
PDB
1
1D4R
1D4R
PDB
2
1D4R
1
29
1D4R
1
29
1D4R
A
1
1
29
1
29
1D4R
1
29
1D4R
B
2
1
29
1
29
1D4R
1
29
1D4R
C
2
1
29
BINDING SITE FOR RESIDUE MG C 301
C
MG
301
Software
4
BINDING SITE FOR RESIDUE MG B 302
B
MG
302
Software
5
BINDING SITE FOR RESIDUE MG B 303
B
MG
303
Software
3
BINDING SITE FOR RESIDUE MG A 304
A
MG
304
Software
5
BINDING SITE FOR RESIDUE MG A 305
A
MG
305
Software
5
C
HOH
306
K
HOH
4
1_555
C
HOH
307
K
HOH
4
1_555
C
HOH
308
K
HOH
4
1_555
C
HOH
309
K
HOH
4
1_555
B
G
19
B
G
19
5
1_555
B
HOH
310
J
HOH
5
1_555
B
HOH
311
J
HOH
5
1_555
B
HOH
312
J
HOH
5
1_555
B
HOH
313
J
HOH
5
1_555
A
HOH
315
I
HOH
3
1_555
A
HOH
316
I
HOH
3
1_555
B
HOH
314
J
HOH
3
1_555
A
GDP
1
A
GDP
1
5
1_555
A
HOH
317
I
HOH
5
1_555
A
HOH
318
I
HOH
5
1_555
A
HOH
319
I
HOH
5
1_555
B
GDP
1
B
GDP
1
5
2_545
A
HOH
320
I
HOH
5
1_555
A
HOH
321
I
HOH
5
1_555
A
HOH
322
I
HOH
5
1_555
B
GDP
1
B
GDP
1
5
2_545
B
G
2
B
G
2
5
2_545
152
trigonal
P 31 2 1