0.010991
0.006345
-0.000000
0.000000
0.012691
-0.000000
0.000000
0.000000
0.004239
0.00000
0.00000
0.00000
Zhang, L.
Doudna, J.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
12
90.00
90.00
120.00
90.987
90.987
235.891
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
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
O
N
74
N
P
N
75
N
O
N
76
N
O
N
77
N
O
N
78
N
C
N
79
R
C
N
80
N
O
N
81
S
C
N
82
N
O
N
83
R
C
N
84
N
O
N
85
R
C
Y
86
N
N
Y
87
N
C
Y
88
N
N
Y
89
N
C
N
90
N
C
N
91
N
O
N
92
N
N
N
93
N
C
N
94
N
N
N
95
N
N
Y
96
N
C
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
H
N
110
N
H
N
111
N
MG
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
N
125
N
N
N
126
N
C
N
127
N
O
N
128
N
N
N
129
N
C
N
130
N
O
N
131
N
C
N
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
1
N
sing
N
2
N
sing
N
3
N
doub
N
4
N
sing
N
5
N
sing
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
sing
N
10
N
sing
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
Y
25
N
sing
Y
26
N
sing
Y
27
N
doub
N
28
N
sing
Y
29
N
sing
Y
30
N
sing
Y
31
N
doub
N
32
N
sing
Y
33
N
doub
N
34
N
sing
N
35
N
sing
Y
36
N
sing
Y
37
N
doub
N
38
N
sing
Y
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
doub
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
sing
N
66
N
doub
N
67
N
sing
N
68
N
doub
N
69
N
sing
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
doub
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
doub
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
sing
N
99
N
sing
Y
100
N
sing
Y
101
N
sing
Y
102
N
doub
N
103
N
sing
Y
104
N
sing
N
105
N
sing
Y
106
N
doub
N
107
N
doub
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
N
112
N
doub
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
doub
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
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
sing
N
145
N
sing
N
146
N
doub
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
US
Science
SCIEAS
0038
0036-8075
295
2084
2088
10.1126/science.1069268
11859154
Structural insights into group II intron catalysis and branch-site selection.
2002
10.2210/pdb1kxk/pdb
pdb_00001kxk
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
100
1
CCD
2001-04-22
ADSC QUANTUM 4
CCD
2001-04-22
ADSC QUANTUM 4
Si(111) or (220)
SINGLE WAVELENGTH
M
x-ray
1
Si(111) or (220)
MAD
M
x-ray
1
1.1
1.0
0.92
1.0
0.9194
1.0
0.9273
1.0
0.9020
1.0
X25
NSLS
1.1
SYNCHROTRON
NSLS BEAMLINE X25
X25
NSLS
0.92, 0.9194, 0.9273, 0.9020
SYNCHROTRON
NSLS BEAMLINE X25
22620.477
ai5g group II Self-splicing intron
domain 5 and 6
1
syn
polymer
24.305
MAGNESIUM ION
2
syn
non-polymer
no
no
GUCUACCUAUCGGGCUAAGGAGCCGUAUGCGAUGAAAGUCGCACGUACGGUUCUAUGCCCGGGGGAAAAC
GUCUACCUAUCGGGCUAAGGAGCCGUAUGCGAUGAAAGUCGCACGUACGGUUCUAUGCCCGGGGGAAAAC
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
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
2
6.23
80.26
VAPOR DIFFUSION, SITTING DROP
7.0
HEPES-KOH, magnesium chloride, ammonium sulfate, spermine, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
298
HEPES-KOH
1
MgCl
1
ammonium sulfate
1
spermine
1
5.879
4
24
A
4
A
66
-101.729
A_U4:A66_A
1
-1.911
4.230
-0.280
-2.149
0.619
9
11
A
5
A
65
1.330
A_A5:G65_A
2
-1.878
-6.932
-0.179
-3.824
8.932
1
19
A
6
A
64
1.362
A_C6:G64_A
3
-4.482
0.146
-0.205
-0.215
8.109
1
19
A
7
A
63
0.077
A_C7:G63_A
4
-6.891
0.119
-0.198
-0.343
1.966
1
28
A
8
A
62
2.933
A_U8:G62_A
5
-5.539
2.542
-0.091
-0.831
14.355
1
19
A
11
A
61
5.205
A_C11:G61_A
6
-11.721
1.002
-0.838
-0.226
-4.930
1
19
A
12
A
60
1.047
A_G12:C60_A
7
-8.061
0.780
0.372
-0.198
4.228
1
19
A
13
A
59
-9.729
A_G13:C59_A
8
-9.554
-0.696
0.551
-0.566
-5.940
1
19
A
14
A
58
-1.762
A_G14:C58_A
9
-12.988
-0.105
0.017
-0.273
-4.503
1
19
A
15
A
57
0.103
A_C15:G57_A
10
-4.722
0.254
0.163
-0.322
-10.343
4
24
A
16
A
55
-81.193
A_U16:A55_A
11
1.395
4.259
0.574
-2.248
4.103
9
A
18
A
17
-15.928
A_A18:A17_A
12
-14.209
-7.651
0.076
0.505
6.393
1
28
A
19
A
54
9.368
A_G19:U54_A
13
-16.925
-2.787
0.792
-0.745
0.368
1
19
A
20
A
53
-14.116
A_G20:C53_A
14
-21.431
-0.712
-0.088
-0.657
4.808
1
20
A
21
A
52
-2.027
A_A21:U52_A
15
-17.126
1.306
0.435
-0.398
4.458
28
A
22
A
51
-6.650
A_G22:U51_A
16
-12.474
-1.671
0.664
-0.058
11.385
1
A
23
A
50
11.967
A_C23:G50_A
17
-17.521
1.581
0.292
0.186
6.002
1
A
24
A
49
-1.472
A_C24:G49_A
18
-25.479
1.727
0.694
-0.509
-0.698
1
19
A
25
A
48
-11.780
A_G25:C48_A
19
-7.887
-0.515
0.648
-0.500
-4.315
1
20
A
26
A
47
4.587
A_U26:A47_A
20
1.912
-0.300
0.379
0.129
9.671
1
20
A
27
A
46
2.876
A_A27:U46_A
21
-5.264
0.720
0.960
-0.027
2.128
1
28
A
28
A
45
1.370
A_U28:G45_A
22
-12.869
2.227
0.683
-0.742
-3.547
1
19
A
29
A
42
-3.002
A_G29:C42_A
23
0.807
0.383
0.073
-0.217
0.793
1
19
A
30
A
41
2.551
A_C30:G41_A
24
-8.564
0.457
-0.095
-0.200
-13.409
1
19
A
31
A
40
10.934
A_G31:C40_A
25
-11.282
-0.010
-0.550
0.150
-2.860
1
20
A
32
A
39
4.093
A_A32:U39_A
26
-9.424
0.459
-0.262
-0.059
-3.416
1
28
A
33
A
38
2.011
A_U33:G38_A
27
1.693
2.284
0.022
-0.733
17.304
A
34
A
37
-17.838
A_G34:A37_A
28
3.464
6.820
0.023
-5.031
4.252
-11.585
A
A
4
5
-16.190
A
A
66
65
3.425
3.200
4.948
0.006
AA_U4A5:G65A66_AA
1
-2.445
-12.369
-10.865
-5.433
20.381
3.182
61.186
A
A
5
6
2.356
A
A
65
64
3.195
2.398
0.443
-0.446
AA_A5C6:G64G65_AA
2
0.807
-0.793
61.138
-0.549
-0.397
3.042
27.665
A
A
6
7
7.888
A
A
64
63
3.396
3.760
0.116
-2.445
AA_C6C7:G63G64_AA
3
0.528
-1.107
27.408
-6.015
-0.117
3.358
41.143
A
A
7
8
6.111
A
A
63
62
3.490
4.286
0.147
-1.176
AA_C7U8:G62G63_AA
4
1.287
-1.835
40.910
-2.161
-0.062
2.174
46.853
A
A
8
11
10.911
A
A
62
61
3.063
8.530
-2.106
-1.071
AA_U8C11:G61G62_AA
5
12.884
-16.480
44.367
-1.931
3.530
3.079
35.530
A
A
11
12
20.173
A
A
61
60
3.654
11.945
-0.937
-1.482
AA_C11G12:C60G61_AA
6
-9.154
15.459
32.280
-4.318
0.087
2.464
19.746
A
A
12
13
6.622
A
A
60
59
2.722
2.263
0.519
-2.421
AA_G12G13:C59C60_AA
7
1.736
-5.080
19.541
-7.923
-0.852
2.695
38.828
A
A
13
14
16.956
A
A
59
58
3.309
11.069
1.095
-2.262
AA_G13G14:C58C59_AA
8
6.870
-10.523
36.657
-4.680
-0.855
2.561
31.774
A
A
14
15
10.342
A
A
58
57
2.944
5.618
-1.137
-2.670
AA_G14C15:G57C58_AA
9
-4.160
7.659
31.015
-5.754
1.427
3.416
71.653
A
A
15
16
4.371
A
A
57
55
3.488
5.114
-2.762
-2.150
AA_C15U16:A55G57_AA
10
-2.046
1.749
71.469
-2.020
2.287
1.523
-24.193
A
A
16
18
23.225
A
A
55
17
2.657
-7.873
-0.882
-1.213
AA_U16A18:A17A55_AA
11
20.261
59.770
-10.687
5.135
3.663
3.478
52.885
A
A
18
19
0.262
A
A
17
54
3.514
0.233
0.922
1.968
AA_A18G19:U54A17_AA
12
-2.474
2.779
52.830
2.193
-1.206
2.783
45.229
A
A
19
20
15.607
A
A
54
53
3.389
11.873
-0.146
-1.965
AA_G19G20:C53U54_AA
13
1.775
-2.333
43.688
-3.574
0.342
3.000
43.764
A
A
20
21
3.999
A
A
53
52
3.103
2.978
0.620
-1.934
AA_G20A21:U52C53_AA
14
2.409
-3.235
43.604
-2.860
-0.618
1.179
15.960
A
A
21
22
33.586
A
A
52
51
2.918
8.791
0.347
-2.332
AA_A21G22:U51U52_AA
15
1.639
-6.261
13.233
-12.820
-0.424
3.202
40.771
A
A
22
23
2.263
A
A
51
50
3.154
1.573
1.016
-0.980
AA_G22C23:G50U51_AA
16
4.322
-6.216
40.521
-1.576
-0.994
2.872
38.904
A
A
23
24
11.227
A
A
50
49
3.269
7.434
-0.426
-1.768
AA_C23C24:G49G50_AA
17
1.323
-1.998
38.192
-3.510
0.792
2.821
14.830
A
A
24
25
9.989
A
A
49
48
3.258
2.528
-0.495
-2.309
AA_C24G25:C48G49_AA
18
-4.305
17.010
13.968
-11.003
-1.587
2.670
32.761
A
A
25
26
14.948
A
A
48
47
3.290
8.336
0.123
-2.084
AA_G25U26:A47C48_AA
19
2.419
-4.337
31.621
-5.028
0.169
1.781
38.653
A
A
26
27
17.968
A
A
47
46
2.439
11.693
0.032
-1.819
AA_U26A27:U46A47_AA
20
-4.565
7.014
36.632
-3.703
-0.422
3.353
40.397
A
A
27
28
-1.681
A
A
46
45
3.299
-1.161
0.182
-1.965
AA_A27U28:G45U46_AA
21
0.283
-0.410
40.380
-2.713
-0.231
0.951
15.977
A
A
28
29
31.556
A
A
45
42
2.802
8.339
-3.041
-2.995
AA_U28G29:C42G45_AA
22
-0.611
2.311
13.626
-14.560
10.663
2.574
30.835
A
A
29
30
17.124
A
A
42
41
3.231
8.945
0.086
-1.671
AA_G29C30:G41C42_AA
23
-4.695
8.988
29.171
-4.735
-0.998
2.882
29.820
A
A
30
31
19.251
A
A
41
40
3.686
9.718
-0.261
-1.787
AA_C30G31:C40G41_AA
24
2.815
-5.577
28.087
-5.569
1.115
3.023
33.359
A
A
31
32
6.123
A
A
40
39
3.182
3.507
-0.264
-1.489
AA_G31A32:U39C40_AA
25
-1.979
3.456
33.122
-3.149
0.147
3.095
36.892
A
A
32
33
9.505
A
A
39
38
3.346
5.990
0.294
-1.280
AA_A32U33:G38U39_AA
26
-1.000
1.587
36.406
-2.826
-0.599
2.316
40.086
A
A
33
34
9.506
A
A
38
37
2.822
6.476
-2.037
-1.457
AA_U33G34:A37G38_AA
27
4.670
-6.856
39.315
-2.712
3.395
chem_comp_atom
chem_comp_bond
database_2
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2002-03-22
1
1
2008-04-27
1
2
2011-07-13
1
3
2024-02-14
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_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_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_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
RCSB
Y
RCSB
2002-01-31
REL
REL
MG
MAGNESIUM ION
THE SEQUENCE IS FROM Saccharomyces cerevisiae (yeast). in vitro transcription.
sample
MG2
71
2
MG
MG
71
A
MG2
72
2
MG
MG
72
A
GUA
1
n
1
G
1
A
URI
2
n
2
U
2
A
CYT
3
n
3
C
3
A
URI
4
n
4
U
4
A
ADE
5
n
5
A
5
A
CYT
6
n
6
C
6
A
CYT
7
n
7
C
7
A
URI
8
n
8
U
8
A
ADE
9
n
9
A
9
A
URI
10
n
10
U
10
A
CYT
11
n
11
C
11
A
GUA
12
n
12
G
12
A
GUA
13
n
13
G
13
A
GUA
14
n
14
G
14
A
CYT
15
n
15
C
15
A
URI
16
n
16
U
16
A
ADE
17
n
17
A
17
A
ADE
18
n
18
A
18
A
GUA
19
n
19
G
19
A
GUA
20
n
20
G
20
A
ADE
21
n
21
A
21
A
GUA
22
n
22
G
22
A
CYT
23
n
23
C
23
A
CYT
24
n
24
C
24
A
GUA
25
n
25
G
25
A
URI
26
n
26
U
26
A
ADE
27
n
27
A
27
A
URI
28
n
28
U
28
A
GUA
29
n
29
G
29
A
CYT
30
n
30
C
30
A
GUA
31
n
31
G
31
A
ADE
32
n
32
A
32
A
URI
33
n
33
U
33
A
GUA
34
n
34
G
34
A
ADE
35
n
35
A
35
A
ADE
36
n
36
A
36
A
ADE
37
n
37
A
37
A
GUA
38
n
38
G
38
A
URI
39
n
39
U
39
A
CYT
40
n
40
C
40
A
GUA
41
n
41
G
41
A
CYT
42
n
42
C
42
A
ADE
43
n
43
A
43
A
CYT
44
n
44
C
44
A
GUA
45
n
45
G
45
A
URI
46
n
46
U
46
A
ADE
47
n
47
A
47
A
CYT
48
n
48
C
48
A
GUA
49
n
49
G
49
A
GUA
50
n
50
G
50
A
URI
51
n
51
U
51
A
URI
52
n
52
U
52
A
CYT
53
n
53
C
53
A
URI
54
n
54
U
54
A
ADE
55
n
55
A
55
A
URI
56
n
56
U
56
A
GUA
57
n
57
G
57
A
CYT
58
n
58
C
58
A
CYT
59
n
59
C
59
A
CYT
60
n
60
C
60
A
GUA
61
n
61
G
61
A
GUA
62
n
62
G
62
A
GUA
63
n
63
G
63
A
GUA
64
n
64
G
64
A
GUA
65
n
65
G
65
A
ADE
66
n
66
A
66
A
ADE
67
n
67
A
67
A
ADE
68
n
68
A
68
A
ADE
69
n
69
A
69
A
CYT
70
n
70
C
70
A
author_defined_assembly
1
monomeric
A
C
53
A
O3'
C
53
1_555
A
MG
71
B
MG
MG
1_555
A
U
54
A
OP1
U
54
1_555
60.0
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
9
0.055
SIDE CHAIN
1
A
G
34
0.062
SIDE CHAIN
0.2680000
0.2476000
0.2497000
0.2497000
3.0
30
1031
12289
10014
81.5
random
1
FREE R
0.0
MAD
Engh & Huber
3.0
30
0
1499
2
1497
0
0.4421000
0.4186000
3.11
46
51.3
3.0
30
1KXK
12289
10014
2.0
2.0
0.0540000
1,2
23.4
15.5
81.5
3.00
3.11
3.0
0.4300000
51.7
refinement
CNS
data reduction
DENZO
data scaling
SCALEPACK
phasing
CNS
Crystal Structure of a RNA Molecule Containing Domain 5 and 6 of the Yeast ai5g Group II Self-splicing Intron
1
N
N
2
N
N
2
N
N
metalc
2.788
A
C
53
A
O3'
C
53
1_555
A
MG
71
B
MG
MG
1_555
metalc
2.033
A
U
54
A
OP1
U
54
1_555
A
MG
71
B
MG
MG
1_555
hydrog
REVERSED HOOGSTEEN
A
U
4
A
N3
U
4
1_555
A
A
66
A
N7
A
66
1_555
hydrog
REVERSED HOOGSTEEN
A
U
4
A
O2
U
4
1_555
A
A
66
A
N6
A
66
1_555
hydrog
TYPE_11_PAIR
A
A
5
A
N6
A
5
1_555
A
G
65
A
N3
G
65
1_555
hydrog
TYPE_11_PAIR
A
A
5
A
N7
A
5
1_555
A
G
65
A
N2
G
65
1_555
hydrog
WATSON-CRICK
A
C
6
A
N3
C
6
1_555
A
G
64
A
N1
G
64
1_555
hydrog
WATSON-CRICK
A
C
6
A
N4
C
6
1_555
A
G
64
A
O6
G
64
1_555
hydrog
WATSON-CRICK
A
C
6
A
O2
C
6
1_555
A
G
64
A
N2
G
64
1_555
hydrog
WATSON-CRICK
A
C
7
A
N3
C
7
1_555
A
G
63
A
N1
G
63
1_555
hydrog
WATSON-CRICK
A
C
7
A
N4
C
7
1_555
A
G
63
A
O6
G
63
1_555
hydrog
WATSON-CRICK
A
C
7
A
O2
C
7
1_555
A
G
63
A
N2
G
63
1_555
hydrog
TYPE_28_PAIR
A
U
8
A
N3
U
8
1_555
A
G
62
A
O6
G
62
1_555
hydrog
TYPE_28_PAIR
A
U
8
A
O2
U
8
1_555
A
G
62
A
N1
G
62
1_555
hydrog
WATSON-CRICK
A
C
11
A
N3
C
11
1_555
A
G
61
A
N1
G
61
1_555
hydrog
WATSON-CRICK
A
C
11
A
N4
C
11
1_555
A
G
61
A
O6
G
61
1_555
hydrog
WATSON-CRICK
A
C
11
A
O2
C
11
1_555
A
G
61
A
N2
G
61
1_555
hydrog
WATSON-CRICK
A
G
12
A
N1
G
12
1_555
A
C
60
A
N3
C
60
1_555
hydrog
WATSON-CRICK
A
G
12
A
N2
G
12
1_555
A
C
60
A
O2
C
60
1_555
hydrog
WATSON-CRICK
A
G
12
A
O6
G
12
1_555
A
C
60
A
N4
C
60
1_555
hydrog
WATSON-CRICK
A
G
13
A
N1
G
13
1_555
A
C
59
A
N3
C
59
1_555
hydrog
WATSON-CRICK
A
G
13
A
N2
G
13
1_555
A
C
59
A
O2
C
59
1_555
hydrog
WATSON-CRICK
A
G
13
A
O6
G
13
1_555
A
C
59
A
N4
C
59
1_555
hydrog
WATSON-CRICK
A
G
14
A
N1
G
14
1_555
A
C
58
A
N3
C
58
1_555
hydrog
WATSON-CRICK
A
G
14
A
N2
G
14
1_555
A
C
58
A
O2
C
58
1_555
hydrog
WATSON-CRICK
A
G
14
A
O6
G
14
1_555
A
C
58
A
N4
C
58
1_555
hydrog
WATSON-CRICK
A
C
15
A
N3
C
15
1_555
A
G
57
A
N1
G
57
1_555
hydrog
WATSON-CRICK
A
C
15
A
N4
C
15
1_555
A
G
57
A
O6
G
57
1_555
hydrog
WATSON-CRICK
A
C
15
A
O2
C
15
1_555
A
G
57
A
N2
G
57
1_555
hydrog
REVERSED HOOGSTEEN
A
U
16
A
N3
U
16
1_555
A
A
55
A
N7
A
55
1_555
hydrog
REVERSED HOOGSTEEN
A
U
16
A
O2
U
16
1_555
A
A
55
A
N6
A
55
1_555
hydrog
A-A MISPAIR
A
A
17
A
N3
A
17
1_555
A
A
18
A
N6
A
18
1_555
hydrog
TYPE_28_PAIR
A
G
19
A
N1
G
19
1_555
A
U
54
A
O2
U
54
1_555
hydrog
TYPE_28_PAIR
A
G
19
A
O6
G
19
1_555
A
U
54
A
N3
U
54
1_555
hydrog
WATSON-CRICK
A
G
20
A
N1
G
20
1_555
A
C
53
A
N3
C
53
1_555
hydrog
WATSON-CRICK
A
G
20
A
N2
G
20
1_555
A
C
53
A
O2
C
53
1_555
hydrog
WATSON-CRICK
A
G
20
A
O6
G
20
1_555
A
C
53
A
N4
C
53
1_555
hydrog
WATSON-CRICK
A
A
21
A
N1
A
21
1_555
A
U
52
A
N3
U
52
1_555
hydrog
WATSON-CRICK
A
A
21
A
N6
A
21
1_555
A
U
52
A
O4
U
52
1_555
hydrog
TYPE_28_PAIR
A
G
22
A
N1
G
22
1_555
A
U
51
A
O2
U
51
1_555
hydrog
TYPE_28_PAIR
A
G
22
A
O6
G
22
1_555
A
U
51
A
N3
U
51
1_555
hydrog
C-G PAIR
A
C
23
A
O2
C
23
1_555
A
G
50
A
N1
G
50
1_555
hydrog
C-G PAIR
A
C
24
A
O2
C
24
1_555
A
G
49
A
N1
G
49
1_555
hydrog
WATSON-CRICK
A
G
25
A
N1
G
25
1_555
A
C
48
A
N3
C
48
1_555
hydrog
WATSON-CRICK
A
G
25
A
N2
G
25
1_555
A
C
48
A
O2
C
48
1_555
hydrog
WATSON-CRICK
A
G
25
A
O6
G
25
1_555
A
C
48
A
N4
C
48
1_555
hydrog
WATSON-CRICK
A
U
26
A
N3
U
26
1_555
A
A
47
A
N1
A
47
1_555
hydrog
WATSON-CRICK
A
U
26
A
O4
U
26
1_555
A
A
47
A
N6
A
47
1_555
hydrog
WATSON-CRICK
A
A
27
A
N1
A
27
1_555
A
U
46
A
N3
U
46
1_555
hydrog
WATSON-CRICK
A
A
27
A
N6
A
27
1_555
A
U
46
A
O4
U
46
1_555
hydrog
TYPE_28_PAIR
A
U
28
A
N3
U
28
1_555
A
G
45
A
O6
G
45
1_555
hydrog
TYPE_28_PAIR
A
U
28
A
O2
U
28
1_555
A
G
45
A
N1
G
45
1_555
hydrog
WATSON-CRICK
A
G
29
A
N1
G
29
1_555
A
C
42
A
N3
C
42
1_555
hydrog
WATSON-CRICK
A
G
29
A
N2
G
29
1_555
A
C
42
A
O2
C
42
1_555
hydrog
WATSON-CRICK
A
G
29
A
O6
G
29
1_555
A
C
42
A
N4
C
42
1_555
hydrog
WATSON-CRICK
A
C
30
A
N3
C
30
1_555
A
G
41
A
N1
G
41
1_555
hydrog
WATSON-CRICK
A
C
30
A
N4
C
30
1_555
A
G
41
A
O6
G
41
1_555
hydrog
WATSON-CRICK
A
C
30
A
O2
C
30
1_555
A
G
41
A
N2
G
41
1_555
hydrog
WATSON-CRICK
A
G
31
A
N1
G
31
1_555
A
C
40
A
N3
C
40
1_555
hydrog
WATSON-CRICK
A
G
31
A
N2
G
31
1_555
A
C
40
A
O2
C
40
1_555
hydrog
WATSON-CRICK
A
G
31
A
O6
G
31
1_555
A
C
40
A
N4
C
40
1_555
hydrog
WATSON-CRICK
A
A
32
A
N1
A
32
1_555
A
U
39
A
N3
U
39
1_555
hydrog
WATSON-CRICK
A
A
32
A
N6
A
32
1_555
A
U
39
A
O4
U
39
1_555
hydrog
TYPE_28_PAIR
A
U
33
A
N3
U
33
1_555
A
G
38
A
O6
G
38
1_555
hydrog
TYPE_28_PAIR
A
U
33
A
O2
U
33
1_555
A
G
38
A
N1
G
38
1_555
hydrog
G-A MISPAIR
A
G
34
A
N2
G
34
1_555
A
A
37
A
N7
A
37
1_555
RNA
double helix, tetraloop, tetraloop receptor, two-nucleotide bulge, RNA
1KXK
PDB
1
1KXK
1
70
1KXK
1
70
1KXK
A
1
1
70
BINDING SITE FOR RESIDUE MG A 71
A
MG
71
Software
2
BINDING SITE FOR RESIDUE MG A 72
A
MG
72
Software
1
A
C
53
A
C
53
2
1_555
A
U
54
A
U
54
2
1_555
A
G
38
A
G
38
1
1_555
178
P 61 2 2