0.014995
0.008657
0.000000
0.000000
0.017315
0.000000
0.000000
0.000000
0.007116
0.00000
0.00000
0.00000
Dunham, C.M.
Murray, J.B.
Scott, W.G.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
6
90.00
90.00
120.00
66.689
66.689
140.528
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
Co 2
58.933
COBALT (II) ION
non-polymer
C10 H14 N5 O8 P
363.221
y
GUANOSINE-5'-MONOPHOSPHATE
RNA linking
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
CO
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
Y
87
N
N
Y
88
N
C
Y
89
N
N
Y
90
N
C
N
91
N
C
N
92
N
O
N
93
N
N
N
94
N
C
N
95
N
N
N
96
N
N
Y
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
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
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
332
327
336
10.1016/S0022-2836(03)00843-X
12948485
A helical twist-induced conformational switch activates cleavage in the hammerhead ribozyme.
2003
10.2210/pdb1q29/pdb
pdb_00001q29
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
SINGLE WAVELENGTH
M
x-ray
1
1.0
5.0.2
ALS
SYNCHROTRON
ALS BEAMLINE 5.0.2
5515.309
5'-R(*GP*GP*UP*GP*GP*UP*CP*UP*GP*AP*UP*GP*AP*GP*GP*CP*C)-3'
1
syn
polymer
7674.670
Ribozyme
1
syn
polymer
58.933
COBALT (II) ION
5
syn
non-polymer
no
no
GGUGGUCUGAUGAGGCC
GGUGGUCUGAUGAGGCC
A
polyribonucleotide
no
no
GCCGAAACUCGUAAGAGUCACCAC
GCCGAAACUCGUAAGAGUCACCAC
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
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
6.84
82.02
15.266
1
19
A
10
A
26
-2.138
A_G10:C26_A
1
-18.011
-0.132
0.299
0.079
6.452
1
19
B
102
A
25
-4.787
B_G102:C25_A
2
-8.451
-0.509
0.433
0.099
3.562
1
19
B
103
A
24
-1.864
B_C103:G24_A
3
-15.645
-0.207
0.069
-0.112
2.261
1
19
B
104
A
23
5.665
B_C104:G23_A
4
-13.455
0.177
0.064
0.076
9.922
10
11
B
105
A
22
-5.210
B_G105:A22_A
5
-15.934
6.942
-0.075
-4.443
-24.878
10
11
B
106
A
21
1.176
B_A106:G21_A
6
18.921
-6.882
0.097
-4.357
14.159
5
B
107
A
20
45.065
B_A107:U20_A
7
-2.005
-6.458
0.130
-0.645
-0.418
1
19
B
109
B
118
-5.250
B_C109:G118_B
8
-19.246
0.664
0.456
0.021
5.680
1
20
B
110
B
117
5.179
B_U110:A117_B
9
-9.031
-0.702
0.226
0.133
15.951
1
19
B
111
B
116
4.291
B_C111:G116_B
10
-8.879
0.748
-0.224
-0.178
-2.885
B
112
B
115
-43.914
B_G112:A115_B
11
-18.874
7.501
0.309
-5.611
-3.760
1
A
11
B
125
1.135
A_G11:C125_B
12
-23.123
0.350
0.160
0.460
4.806
A
12
B
124
5.882
A_U12:A124_B
13
-12.952
0.288
0.273
0.424
3.544
1
19
A
13
B
123
-0.101
A_G13:C123_B
14
-11.667
0.249
0.369
-0.082
-10.734
1
19
A
14
B
122
3.641
A_G14:C122_B
15
-17.890
0.192
-0.120
-0.061
-10.552
1
20
A
15
B
121
0.429
A_U15:A121_B
16
-8.295
0.408
0.465
-0.009
2.410
31.075
A
B
10
102
23.634
A
A
26
25
3.388
12.283
0.390
-1.599
AB_G10G102:C25C26_AA
1
-4.580
8.813
28.236
-5.178
-1.547
3.302
35.006
B
B
102
103
-1.301
A
A
25
24
3.250
-0.782
0.171
-2.238
BB_G102C103:G24C25_AA
2
1.611
-2.679
34.962
-3.603
-0.042
2.942
30.205
B
B
103
104
9.125
A
A
24
23
3.289
4.736
0.190
-1.980
BB_C103C104:G23G24_AA
3
-0.622
1.199
29.834
-4.721
-0.486
3.396
58.254
B
B
104
105
3.184
A
A
23
22
3.431
3.099
-0.875
-0.516
BB_C104G105:A22G23_AA
4
0.389
-0.400
58.178
-0.701
0.920
3.151
-10.609
B
B
105
106
-1.034
A
A
22
21
3.929
0.185
1.016
-1.192
BB_G105A106:G21A22_AA
5
4.498
25.120
-9.609
6.098
13.993
-0.177
37.391
B
B
106
107
17.781
A
A
21
20
2.021
10.667
2.911
-1.073
BB_A106A107:U20G21_AA
6
-19.873
33.126
30.018
-2.117
-5.367
6.648
110.509
B
B
107
109
2.314
A
B
20
118
6.694
3.798
-0.177
-1.567
BB_A107C109:G118U20_BA
7
-13.419
8.175
109.916
-1.047
-0.224
3.206
27.213
B
B
109
110
-3.027
B
B
118
117
3.190
-1.419
0.236
-1.575
BB_C109U110:A117G118_BB
8
-3.705
7.901
26.927
-2.998
-1.415
2.865
42.514
B
B
110
111
6.079
B
B
117
116
2.987
4.400
0.068
-1.093
BB_U110C111:G116A117_BB
9
1.659
-2.293
42.265
-1.908
0.056
2.785
52.984
B
B
111
112
24.809
B
B
116
115
4.123
21.532
-4.857
-1.273
BB_C111G112:A115G116_BB
10
5.981
-6.892
48.353
-2.968
5.872
2.778
37.331
A
A
11
12
6.827
B
B
125
124
2.950
4.359
-0.163
-1.395
AA_G11U12:A124C125_BB
11
-1.798
2.817
37.042
-2.685
0.046
2.952
33.547
A
A
12
13
7.907
B
B
124
123
3.182
4.546
-0.105
-1.404
AA_U12G13:C123A124_BB
12
2.643
-4.597
33.144
-3.136
0.592
2.606
29.972
A
A
13
14
19.189
B
B
123
122
3.483
9.710
0.629
-2.362
AA_G13G14:C122C123_BB
13
4.719
-9.326
28.002
-6.498
-0.279
3.103
31.790
A
A
14
15
2.908
B
B
122
121
3.119
1.585
-0.825
-2.152
AA_G14U15:A121C122_BB
14
-5.335
9.788
31.311
-4.206
0.569
pdbx_validate_polymer_linkage
software
struct_conn
chem_comp_atom
chem_comp_bond
database_2
struct_conn
struct_site
pdbx_initial_refinement_model
repository
Initial release
Version format compliance
Version format compliance
Advisory
Data collection
Derived calculations
Refinement description
Data collection
Database references
Derived calculations
Refinement description
1
0
2004-02-24
1
1
2008-04-29
1
2
2011-07-13
1
3
2019-07-24
1
4
2024-02-14
1
5
2024-04-03
_software.classification
_software.name
_software.version
_struct_conn.pdbx_leaving_atom_flag
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_label_atom_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
Crosslinked Hammerhead Ribozyme Initial State
RCSB
Y
RCSB
2003-07-23
REL
CO
COBALT (II) ION
299D
NDB entry urx057
PDB
experimental model
CO
1
3
CO
CO
1
A
CO
2
3
CO
CO
2
A
CO
5
3
CO
CO
5
A
CO
3
3
CO
CO
3
B
CO
4
3
CO
CO
4
B
G
500
n
1
G
10
A
G
11
n
2
G
11
A
U
12
n
3
U
12
A
G
13
n
4
G
13
A
G
14
n
5
G
14
A
U
15
n
6
U
15
A
C
16
n
7
C
16
A
U
17
n
8
U
17
A
G
18
n
9
G
18
A
A
19
n
10
A
19
A
U
20
n
11
U
20
A
G
21
n
12
G
21
A
A
22
n
13
A
22
A
G
23
n
14
G
23
A
G
24
n
15
G
24
A
C
25
n
16
C
25
A
C
26
n
17
C
26
A
G
102
n
1
G
102
B
C
103
n
2
C
103
B
C
104
n
3
C
104
B
G
105
n
4
G
105
B
A
106
n
5
A
106
B
A
107
n
6
A
107
B
A
108
n
7
A
108
B
C
109
n
8
C
109
B
U
110
n
9
U
110
B
C
111
n
10
C
111
B
G
112
n
11
G
112
B
U
113
n
12
U
113
B
A
114
n
13
A
114
B
A
115
n
14
A
115
B
G
116
n
15
G
116
B
A
117
n
16
A
117
B
G
118
n
17
G
118
B
U
119
n
18
U
119
B
C
120
n
19
C
120
B
A
121
n
20
A
121
B
C
122
n
21
C
122
B
C
123
n
22
C
123
B
A
124
n
23
A
124
B
C
125
n
24
C
125
B
author_defined_assembly
2
dimeric
A
A
22
A
OP2
A
13
1_555
A
CO
5
E
CO
CO
1_555
A
G
23
A
N7
G
14
1_555
84.3
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
N2
G
18
A
N2
G
9
1
Y
1
B
B
O2'
OP1
C
A
120
121
1.72
1
-8.91
1.20
109.10
100.19
A
A
A
C5'
C4'
O4'
G
G
G
11
11
11
N
1
4.60
0.70
108.50
113.10
A
A
A
O4'
C1'
N9
G
G
G
13
13
13
N
1
-8.79
1.00
102.60
93.81
A
A
A
C4'
C3'
C2'
U
U
U
17
17
17
N
1
-10.92
0.90
105.70
94.78
A
A
A
O5'
P
OP2
G
G
G
18
18
18
N
1
-4.29
0.60
125.10
120.81
A
A
A
C6
N1
C2
G
G
G
18
18
18
N
1
8.47
0.50
111.90
120.37
A
A
A
C2
N3
C4
G
G
G
18
18
18
N
1
-8.30
0.50
128.60
120.30
A
A
A
N3
C4
C5
G
G
G
18
18
18
N
1
7.51
0.50
111.50
119.01
A
A
A
C5
C6
N1
G
G
G
18
18
18
N
1
-2.92
0.40
110.80
107.88
A
A
A
C4
C5
N7
G
G
G
18
18
18
N
1
4.66
0.50
104.30
108.96
A
A
A
C5
N7
C8
G
G
G
18
18
18
N
1
-4.30
0.50
113.10
108.80
A
A
A
N7
C8
N9
G
G
G
18
18
18
N
1
6.87
0.60
126.00
132.87
A
A
A
N3
C4
N9
G
G
G
18
18
18
N
1
-7.89
0.60
128.60
120.71
A
A
A
C5
C6
O6
G
G
G
18
18
18
N
1
8.22
1.20
110.70
118.92
B
B
B
O5'
P
OP2
U
U
U
110
110
110
N
1
8.03
1.30
114.00
122.03
B
B
B
N9
C1'
C2'
A
A
A
114
114
114
N
1
-12.04
1.90
104.00
91.96
B
B
B
O3'
P
O5'
G
A
A
116
117
117
Y
1
7.91
1.20
110.70
118.61
B
B
B
O5'
P
OP2
A
A
A
117
117
117
N
1
-3.91
0.60
119.90
115.99
B
B
B
N1
C6
O6
G
G
G
118
118
118
N
1
12.01
1.60
116.00
128.01
B
B
B
C5'
C4'
C3'
C
C
C
120
120
120
N
1
-7.80
0.70
109.70
101.90
B
B
B
C1'
O4'
C4'
C
C
C
120
120
120
N
1
-19.20
2.20
109.50
90.30
B
B
B
C2'
C3'
O3'
C
C
C
120
120
120
N
1
-11.03
1.00
102.60
91.57
B
B
B
C4'
C3'
C2'
C
C
C
120
120
120
N
1
-16.05
1.00
102.60
86.55
B
B
B
C4'
C3'
C2'
A
A
A
121
121
121
N
1
9.67
0.70
108.50
118.17
B
B
B
O4'
C1'
N9
A
A
A
121
121
121
N
1
-4.31
0.70
121.90
117.59
B
B
B
N3
C2
O2
C
C
C
122
122
122
N
1
A
A
C5'
C4'
G
G
11
11
0.233
0.012
1.509
1.742
N
1
A
A
C5
N7
G
G
18
18
-0.045
0.006
1.388
1.343
N
1
A
A
N7
C8
G
G
18
18
0.043
0.006
1.305
1.348
N
1
B
B
O3'
C3'
C
C
109
109
-0.085
0.014
1.417
1.332
N
1
B
B
C4'
C3'
A
A
121
121
0.115
0.011
1.527
1.642
N
1
B
B
O4'
C1'
A
A
121
121
-0.181
0.013
1.412
1.231
N
77.623
0.19
0.09
0.00
0.19
0.00
-0.28
0.944
0.924
0.27914
0.24196
0.24559
3.00
19.80
744
6872
9.8
99.30
17.927
0.310
RANDOM
1
THROUGHOUT
0
MOLECULAR REPLACEMENT
0.385
0.310
0.80
0.80
1.40
NDB entry urx057
BABINET MODEL WITH MASK
3.00
19.80
0
877
5
872
0
0.011
975
.021
2.077
1512
3.0
0.092
164
.20
0.006
427
.02
0.196
396
.20
0.212
14
.20
0.195
25
.20
0.173
4
.20
1.087
975
3.0
1.728
1512
4.5
0.412
0.438
3.077
55
474
20
refinement
REFMAC
5.1
data scaling
SCALA
refinement
CNS
data reduction
MOSFLM
data scaling
CCP4
(SCALA)
phasing
CNS
Hammerhead Ribozyme with 5'-5' G-G linkage: Conformational change experiment
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
3
N
N
3
N
N
Hammerhead Ribozyme with 5'-5' G-G linkage at 5' end of enzyme strand
covale
1.591
one
A
G
10
A
O5'
G
1
1_555
A
G
11
A
P
G
2
1_555
metalc
2.560
A
CO
2
D
CO
CO
1_555
A
G
18
A
N7
G
9
1_555
metalc
2.326
A
CO
5
E
CO
CO
1_555
A
A
22
A
OP2
A
13
1_555
metalc
2.348
A
CO
5
E
CO
CO
1_555
A
G
23
A
N7
G
14
1_555
metalc
2.583
B
CO
3
F
CO
CO
1_555
B
G
116
B
N7
G
15
1_555
metalc
1.996
B
CO
4
G
CO
CO
1_555
B
G
118
B
N7
G
17
1_555
hydrog
WATSON-CRICK
A
G
10
A
N1
G
1
1_555
A
C
26
A
N3
C
17
1_555
hydrog
WATSON-CRICK
A
G
10
A
N2
G
1
1_555
A
C
26
A
O2
C
17
1_555
hydrog
WATSON-CRICK
A
G
10
A
O6
G
1
1_555
A
C
26
A
N4
C
17
1_555
hydrog
G-C PAIR
A
G
11
A
N1
G
2
1_555
B
C
125
B
N3
C
24
1_555
hydrog
U-A PAIR
A
U
12
A
N3
U
3
1_555
B
A
124
B
N1
A
23
1_555
hydrog
WATSON-CRICK
A
G
13
A
N1
G
4
1_555
B
C
123
B
N3
C
22
1_555
hydrog
WATSON-CRICK
A
G
13
A
N2
G
4
1_555
B
C
123
B
O2
C
22
1_555
hydrog
WATSON-CRICK
A
G
13
A
O6
G
4
1_555
B
C
123
B
N4
C
22
1_555
hydrog
WATSON-CRICK
A
G
14
A
N1
G
5
1_555
B
C
122
B
N3
C
21
1_555
hydrog
WATSON-CRICK
A
G
14
A
N2
G
5
1_555
B
C
122
B
O2
C
21
1_555
hydrog
WATSON-CRICK
A
G
14
A
O6
G
5
1_555
B
C
122
B
N4
C
21
1_555
hydrog
WATSON-CRICK
A
U
15
A
N3
U
6
1_555
B
A
121
B
N1
A
20
1_555
hydrog
WATSON-CRICK
A
U
15
A
O4
U
6
1_555
B
A
121
B
N6
A
20
1_555
hydrog
U-A PAIR
A
U
20
A
O2
U
11
1_555
B
A
107
B
N6
A
6
1_555
hydrog
TYPE_11_PAIR
A
G
21
A
N2
G
12
1_555
B
A
106
B
N7
A
5
1_555
hydrog
TYPE_11_PAIR
A
G
21
A
N3
G
12
1_555
B
A
106
B
N6
A
5
1_555
hydrog
TYPE_11_PAIR
A
A
22
A
N6
A
13
1_555
B
G
105
B
N3
G
4
1_555
hydrog
TYPE_11_PAIR
A
A
22
A
N7
A
13
1_555
B
G
105
B
N2
G
4
1_555
hydrog
WATSON-CRICK
A
G
23
A
N1
G
14
1_555
B
C
104
B
N3
C
3
1_555
hydrog
WATSON-CRICK
A
G
23
A
N2
G
14
1_555
B
C
104
B
O2
C
3
1_555
hydrog
WATSON-CRICK
A
G
23
A
O6
G
14
1_555
B
C
104
B
N4
C
3
1_555
hydrog
WATSON-CRICK
A
G
24
A
N1
G
15
1_555
B
C
103
B
N3
C
2
1_555
hydrog
WATSON-CRICK
A
G
24
A
N2
G
15
1_555
B
C
103
B
O2
C
2
1_555
hydrog
WATSON-CRICK
A
G
24
A
O6
G
15
1_555
B
C
103
B
N4
C
2
1_555
hydrog
WATSON-CRICK
A
C
25
A
N3
C
16
1_555
B
G
102
B
N1
G
1
1_555
hydrog
WATSON-CRICK
A
C
25
A
N4
C
16
1_555
B
G
102
B
O6
G
1
1_555
hydrog
WATSON-CRICK
A
C
25
A
O2
C
16
1_555
B
G
102
B
N2
G
1
1_555
hydrog
WATSON-CRICK
B
C
109
B
N3
C
8
1_555
B
G
118
B
N1
G
17
1_555
hydrog
WATSON-CRICK
B
C
109
B
N4
C
8
1_555
B
G
118
B
O6
G
17
1_555
hydrog
WATSON-CRICK
B
C
109
B
O2
C
8
1_555
B
G
118
B
N2
G
17
1_555
hydrog
WATSON-CRICK
B
U
110
B
N3
U
9
1_555
B
A
117
B
N1
A
16
1_555
hydrog
WATSON-CRICK
B
U
110
B
O4
U
9
1_555
B
A
117
B
N6
A
16
1_555
hydrog
WATSON-CRICK
B
C
111
B
N3
C
10
1_555
B
G
116
B
N1
G
15
1_555
hydrog
WATSON-CRICK
B
C
111
B
N4
C
10
1_555
B
G
116
B
O6
G
15
1_555
hydrog
WATSON-CRICK
B
C
111
B
O2
C
10
1_555
B
G
116
B
N2
G
15
1_555
hydrog
G-A MISPAIR
B
G
112
B
N2
G
11
1_555
B
A
115
B
N7
A
14
1_555
RNA
Hammerhead Ribozyme, RNA
1Q29
PDB
1
1Q29
1Q29
PDB
2
1Q29
10
26
1Q29
10
26
1Q29
A
1
1
17
102
125
1Q29
102
125
1Q29
B
2
1
24
BINDING SITE FOR RESIDUE CO A 1
A
CO
1
Software
1
BINDING SITE FOR RESIDUE CO A 2
A
CO
2
Software
1
BINDING SITE FOR RESIDUE CO B 3
B
CO
3
Software
1
BINDING SITE FOR RESIDUE CO B 4
B
CO
4
Software
1
BINDING SITE FOR RESIDUE CO A 5
A
CO
5
Software
2
A
G
14
A
G
5
1
1_555
A
G
18
A
G
9
1
1_555
B
G
116
B
G
15
1
1_555
B
G
118
B
G
17
1
1_555
A
A
22
A
A
13
2
1_555
A
G
23
A
G
14
2
1_555
152
P 31 2 1