0.009145
0.005280
0.000000
0.000000
0.010560
0.000000
0.000000
0.000000
0.005244
0.00000
0.00000
0.00000
Ferre-D'Amare, A.R.
Zhou, K.
Doudna, J.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
18
90.00
90.00
120.00
109.350
109.350
190.680
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C6 H15 N4 O2 1
175.209
y
ARGININE
L-peptide linking
C4 H8 N2 O3
132.118
y
ASPARAGINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide 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
C5 H10 N2 O3
146.144
y
GLUTAMINE
L-peptide linking
C5 H9 N O4
147.129
y
GLUTAMIC ACID
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H10 N3 O2 1
156.162
y
HISTIDINE
L-peptide linking
H2 O
18.015
WATER
non-polymer
C6 H13 N O2
131.173
y
ISOLEUCINE
L-peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
Mg 2
24.305
MAGNESIUM ION
non-polymer
C5 H11 N O2 Se
196.106
n
SELENOMETHIONINE
L-peptide linking
C9 H11 N O2
165.189
y
PHENYLALANINE
L-peptide linking
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C3 H7 N O3
105.093
y
SERINE
L-peptide linking
O4 S -2
96.063
SULFATE ION
non-polymer
C4 H9 N O3
119.119
y
THREONINE
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
UK
Nature
NATUAS
0006
0028-0836
395
567
574
10.1038/26912
9783582
Crystal structure of a hepatitis delta virus ribozyme.
1998
10.2210/pdb1drz/pdb
pdb_00001drz
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
MIRROR
IMAGE PLATE
1998-03-15
RIGAKU
SI
MAD
M
x-ray
1
0.9761
1.0
0.9794
1.0
0.9792
1.0
1.1390
1.0
X4A
NSLS
0.9761, 0.9794, 0.9792, 1.1390
SYNCHROTRON
NSLS BEAMLINE X4A
RNA IS THE PRODUCT OF SELF-CLEAVAGE. NUCLEOTIDES 146 - 159 INCLUSIVE ARE AN ENGINEERED COGNATE BINDING SITE FOR THE U1A PROTEIN
23179.793
RNA (HEPATITIS DELTA VIRUS GENOMIC RIBOZYME)
RIBOZYME DOMAIN
1
man
polymer
SELENOMETHIONYL PROTEIN
11396.701
PROTEIN (U1 SMALL RIBONUCLEOPROTEIN A)
RNA BINDING DOMAIN
Y31H, Q36R
1
man
polymer
24.305
MAGNESIUM ION
3
syn
non-polymer
96.063
SULFATE ION
2
syn
non-polymer
18.015
water
19
nat
water
HDV RIBOZYME, DELTA RIBOZYME
U1A-RBD, U1SNRNP
no
no
GGCCGGCAUGGUCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACACCAUUGCACUCCGGUGGCGAAUGGGAC
GGCCGGCAUGGUCCCAGCCUCCUCGCUGGCGCCGGCUGGGCAACACCAUUGCACUCCGGUGGCGAAUGGGAC
B
polyribonucleotide
no
yes
AVPETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLK(MSE)RGQAFVIFKEVSSATNALRS(MSE)Q
GFPFYDKP(MSE)RIQYAKTDSDIIAK(MSE)K
AVPETRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKP
MRIQYAKTDSDIIAKMK
A
polypeptide(L)
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
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
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
Deltavirus
Escherichia
sample
RNA PRODUCED BY IN VITRO RUN-OFF TRANSCRIPTION WITH BACTERIOPHAGE T7 RNA POLYMERASE FROM PLASMID DNA LINEARIZED WITH RESTRICTION ENZYME BSAI. T7 TRANSCRIPT
12475
Hepatitis delta virus
562
Escherichia coli
PDU9
human
Homo
Escherichia
sample
(A1-98 Y31H Q36R) T7 PLASMID EXPRESSED IN E. COLI STRAIN B834 GROWN IN MINIMAL MEDIUM SUPPLEMENTED WITH SELENOMETHIONINE;
9606
Homo sapiens
562
Escherichia coli
B834
T7
3
3.17
67
7.0
pH 7.0
12.465
1
19
B
121
B
139
1.193
B_C121:G139_B
1
-31.436
0.379
-0.268
-0.116
17.898
1
19
B
122
B
138
3.650
B_C122:G138_B
2
-8.848
-0.474
-0.148
0.349
0.144
28
B
101
B
137
7.197
B_G101:U137_B
3
-1.530
-2.523
-0.115
-0.016
-7.839
1
19
B
102
B
136
4.092
B_G102:C136_B
4
-5.063
-0.212
-0.676
-0.194
-0.022
1
19
B
103
B
135
2.652
B_C103:G135_B
5
-3.465
0.564
-0.412
-0.113
1.353
1
19
B
104
B
134
8.460
B_C104:G134_B
6
-5.088
0.546
-0.013
0.046
4.914
1
19
B
105
B
133
6.376
B_G105:C133_B
7
-5.568
-0.564
0.408
-0.082
4.976
1
19
B
106
B
132
2.462
B_G106:C132_B
8
-7.889
0.330
0.123
-0.226
14.832
1
19
B
107
B
131
2.479
B_C107:G131_B
9
-12.631
0.373
-0.458
0.238
1.146
1
19
B
111
B
172
2.620
B_G111:C172_B
10
-11.397
-0.485
0.786
0.069
0.490
1
20
B
112
B
171
4.379
B_U112:A171_B
11
-12.729
-0.089
0.317
0.122
-2.305
1
19
B
113
B
170
5.339
B_C113:G170_B
12
-9.873
0.603
0.299
-0.105
-3.209
1
19
B
114
B
169
3.535
B_C114:G169_B
13
-11.345
0.553
0.081
-0.131
4.288
1
19
B
115
B
168
1.081
B_C115:G168_B
14
-7.317
0.193
-0.294
0.048
11.346
1
B
116
B
167
16.511
B_A116:U167_B
15
8.445
-0.420
0.146
0.380
10.326
1
19
B
117
B
130
1.338
B_G117:C130_B
16
-20.432
-0.670
0.467
0.086
10.385
1
19
B
118
B
129
5.386
B_C118:G129_B
17
-31.449
0.113
0.165
-0.136
-7.132
1
19
B
119
B
128
-5.690
B_C119:G128_B
18
-20.075
0.376
0.752
-0.372
-14.776
8
B
143
B
162
-11.692
B_A143:G162_B
19
-18.431
-0.098
-0.290
1.706
2.561
1
19
B
144
B
161
3.992
B_C144:G161_B
20
-27.223
0.282
0.188
0.107
-2.882
1
20
B
145
B
160
5.088
B_A145:U160_B
21
-10.032
0.053
0.020
0.036
0.277
1
19
B
146
B
159
1.171
B_C146:G159_B
22
-9.425
0.077
-0.117
-0.261
-1.853
1
19
B
147
B
158
-0.233
B_C147:G158_B
23
-5.059
0.202
-0.019
-0.247
-13.245
3
B
155
B
156
-2.258
B_U155:C156_B
24
-1.884
-6.986
0.399
1.227
2.480
35.081
B
B
121
122
25.041
B
B
139
138
3.288
14.638
-0.138
-1.226
BB_C121C122:G138G139_BB
1
3.133
-5.360
31.818
-4.071
0.665
0.760
8.735
B
B
122
101
32.421
B
B
138
137
3.762
4.650
2.671
-3.500
BB_C122G101:U137G138_BB
2
-1.607
11.208
7.220
-31.615
-20.524
3.244
39.497
B
B
101
102
8.776
B
B
137
136
3.600
5.906
-0.805
-1.782
BB_G101G102:C136U137_BB
3
2.800
-4.161
38.973
-3.369
1.539
3.125
34.655
B
B
102
103
3.151
B
B
136
135
3.214
1.875
-0.080
-1.610
BB_G102C103:G135C136_BB
4
-2.100
3.530
34.544
-2.983
-0.179
3.268
28.095
B
B
103
104
0.117
B
B
135
134
3.291
0.057
0.291
-1.769
BB_C103C104:G134G135_BB
5
-1.523
3.139
28.055
-3.657
-0.958
1.820
28.063
B
B
104
105
26.679
B
B
134
133
2.860
12.478
-0.395
-1.771
BB_C104G105:C133G134_BB
6
-2.784
5.953
25.034
-5.882
0.316
2.779
34.549
B
B
105
106
10.888
B
B
133
132
3.137
6.430
-0.666
-1.803
BB_G105G106:C132C133_BB
7
-1.138
1.928
33.945
-3.943
0.960
2.891
34.862
B
B
106
107
4.482
B
B
132
131
2.998
2.676
0.309
-1.522
BB_G106C107:G131C132_BB
8
4.411
-7.389
34.490
-2.908
0.090
3.002
33.892
B
B
111
112
8.588
B
B
172
171
3.263
4.984
-0.328
-1.350
BB_G111U112:A171C172_BB
9
2.699
-4.651
33.428
-3.088
0.981
2.641
35.494
B
B
112
113
15.316
B
B
171
170
3.141
9.236
0.380
-1.574
BB_U112C113:G170A171_BB
10
-0.145
0.241
34.308
-3.799
-0.643
3.108
31.688
B
B
113
114
4.306
B
B
170
169
3.238
2.349
-0.562
-1.887
BB_C113C114:G169G170_BB
11
-0.934
1.713
31.590
-3.876
0.863
3.033
27.713
B
B
114
115
4.159
B
B
169
168
3.153
1.990
-0.149
-1.561
BB_C114C115:G168G169_BB
12
0.436
-0.912
27.640
-3.714
0.410
3.092
27.176
B
B
115
116
-7.958
B
B
168
167
3.135
-3.718
1.514
-1.441
BB_C115A116:U167G168_BB
13
-3.371
7.215
26.717
-2.169
-4.036
2.789
41.193
B
B
116
117
6.596
B
B
167
130
3.003
4.631
0.798
-2.020
BB_A116G117:C130U167_BB
14
1.196
-1.704
40.926
-3.316
-1.019
3.196
38.677
B
B
117
118
3.378
B
B
130
129
3.222
2.232
0.607
-1.239
BB_G117C118:G129C130_BB
15
4.450
-6.736
38.367
-2.140
-0.378
3.448
39.520
B
B
118
119
11.868
B
B
129
128
3.762
7.971
-0.495
-1.348
BB_C118C119:G128G129_BB
16
-1.972
2.936
38.691
-3.038
0.474
2.515
34.222
B
B
143
144
12.090
B
B
162
161
2.829
7.032
0.603
-0.577
BB_A143C144:G161G162_BB
17
-5.877
10.103
33.007
-1.903
-1.796
2.559
34.818
B
B
144
145
21.159
B
B
161
160
3.248
12.370
-0.334
-1.457
BB_C144A145:U160G161_BB
18
-4.159
7.115
32.350
-4.172
-0.027
3.079
32.518
B
B
145
146
4.874
B
B
160
159
3.184
2.725
-0.169
-1.211
BB_A145C146:G159U160_BB
19
-1.420
2.539
32.377
-2.620
0.063
3.277
32.085
B
B
146
147
3.824
B
B
159
158
3.397
2.110
-0.042
-1.667
BB_C146C147:G158G159_BB
20
-2.360
4.277
31.932
-3.404
-0.358
database_2
pdbx_struct_conn_angle
struct_conn
struct_ref_seq_dif
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
1
0
1999-02-16
1
1
2008-04-27
1
2
2011-07-13
1
3
2021-11-03
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_struct_conn_angle.ptnr1_auth_seq_id
_pdbx_struct_conn_angle.ptnr1_label_atom_id
_pdbx_struct_conn_angle.ptnr1_label_seq_id
_pdbx_struct_conn_angle.ptnr2_auth_seq_id
_pdbx_struct_conn_angle.ptnr2_label_asym_id
_pdbx_struct_conn_angle.ptnr3_auth_comp_id
_pdbx_struct_conn_angle.ptnr3_auth_seq_id
_pdbx_struct_conn_angle.ptnr3_label_atom_id
_pdbx_struct_conn_angle.ptnr3_label_comp_id
_pdbx_struct_conn_angle.ptnr3_label_seq_id
_pdbx_struct_conn_angle.value
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.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_ref_seq_dif.details
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
BNL
Y
NDB
1998-09-01
REL
MG
MAGNESIUM ION
SO4
SULFATE ION
HOH
water
MG
401
3
MG
MG
401
B
MG
402
3
MG
MG
402
B
MG
403
3
MG
MG
403
B
SO4
404
4
SO4
SO4
404
A
SO4
405
4
SO4
SO4
405
A
HOH
305
5
HOH
HOH
305
B
HOH
308
5
HOH
HOH
308
B
HOH
309
5
HOH
HOH
309
B
HOH
310
5
HOH
HOH
310
B
HOH
316
5
HOH
HOH
316
B
HOH
317
5
HOH
HOH
317
B
HOH
318
5
HOH
HOH
318
B
HOH
319
5
HOH
HOH
319
B
HOH
301
5
HOH
HOH
301
A
HOH
302
5
HOH
HOH
302
A
HOH
303
5
HOH
HOH
303
A
HOH
304
5
HOH
HOH
304
A
HOH
306
5
HOH
HOH
306
A
HOH
307
5
HOH
HOH
307
A
HOH
311
5
HOH
HOH
311
A
HOH
312
5
HOH
HOH
312
A
HOH
313
5
HOH
HOH
313
A
HOH
314
5
HOH
HOH
314
A
HOH
315
5
HOH
HOH
315
A
G
101
n
1
G
101
B
G
102
n
2
G
102
B
C
103
n
3
C
103
B
C
104
n
4
C
104
B
G
105
n
5
G
105
B
G
106
n
6
G
106
B
C
107
n
7
C
107
B
A
108
n
8
A
108
B
U
109
n
9
U
109
B
G
110
n
10
G
110
B
G
111
n
11
G
111
B
U
112
n
12
U
112
B
C
113
n
13
C
113
B
C
114
n
14
C
114
B
C
115
n
15
C
115
B
A
116
n
16
A
116
B
G
117
n
17
G
117
B
C
118
n
18
C
118
B
C
119
n
19
C
119
B
U
120
n
20
U
120
B
C
121
n
21
C
121
B
C
122
n
22
C
122
B
U
123
n
23
U
123
B
C
124
n
24
C
124
B
G
125
n
25
G
125
B
C
126
n
26
C
126
B
U
127
n
27
U
127
B
G
128
n
28
G
128
B
G
129
n
29
G
129
B
C
130
n
30
C
130
B
G
131
n
31
G
131
B
C
132
n
32
C
132
B
C
133
n
33
C
133
B
G
134
n
34
G
134
B
G
135
n
35
G
135
B
C
136
n
36
C
136
B
U
137
n
37
U
137
B
G
138
n
38
G
138
B
G
139
n
39
G
139
B
G
140
n
40
G
140
B
C
141
n
41
C
141
B
A
142
n
42
A
142
B
A
143
n
43
A
143
B
C
144
n
44
C
144
B
A
145
n
45
A
145
B
C
146
n
46
C
146
B
C
147
n
47
C
147
B
A
148
n
48
A
148
B
U
149
n
49
U
149
B
U
150
n
50
U
150
B
G
151
n
51
G
151
B
C
152
n
52
C
152
B
A
153
n
53
A
153
B
C
154
n
54
C
154
B
U
155
n
55
U
155
B
C
156
n
56
C
156
B
C
157
n
57
C
157
B
G
158
n
58
G
158
B
G
159
n
59
G
159
B
U
160
n
60
U
160
B
G
161
n
61
G
161
B
G
162
n
62
G
162
B
C
163
n
63
C
163
B
G
164
n
64
G
164
B
A
165
n
65
A
165
B
A
166
n
66
A
166
B
U
167
n
67
U
167
B
G
168
n
68
G
168
B
G
169
n
69
G
169
B
G
170
n
70
G
170
B
A
171
n
71
A
171
B
C
172
n
72
C
172
B
n
1
2
A
n
2
3
A
PRO
4
n
3
PRO
4
A
GLU
5
n
4
GLU
5
A
THR
6
n
5
THR
6
A
ARG
7
n
6
ARG
7
A
PRO
8
n
7
PRO
8
A
ASN
9
n
8
ASN
9
A
HIS
10
n
9
HIS
10
A
THR
11
n
10
THR
11
A
ILE
12
n
11
ILE
12
A
TYR
13
n
12
TYR
13
A
ILE
14
n
13
ILE
14
A
ASN
15
n
14
ASN
15
A
ASN
16
n
15
ASN
16
A
LEU
17
n
16
LEU
17
A
ASN
18
n
17
ASN
18
A
GLU
19
n
18
GLU
19
A
LYS
20
n
19
LYS
20
A
ILE
21
n
20
ILE
21
A
LYS
22
n
21
LYS
22
A
LYS
23
n
22
LYS
23
A
ASP
24
n
23
ASP
24
A
GLU
25
n
24
GLU
25
A
LEU
26
n
25
LEU
26
A
LYS
27
n
26
LYS
27
A
LYS
28
n
27
LYS
28
A
SER
29
n
28
SER
29
A
LEU
30
n
29
LEU
30
A
HIS
31
n
30
HIS
31
A
ALA
32
n
31
ALA
32
A
ILE
33
n
32
ILE
33
A
PHE
34
n
33
PHE
34
A
SER
35
n
34
SER
35
A
ARG
36
n
35
ARG
36
A
PHE
37
n
36
PHE
37
A
GLY
38
n
37
GLY
38
A
GLN
39
n
38
GLN
39
A
ILE
40
n
39
ILE
40
A
LEU
41
n
40
LEU
41
A
ASP
42
n
41
ASP
42
A
ILE
43
n
42
ILE
43
A
LEU
44
n
43
LEU
44
A
VAL
45
n
44
VAL
45
A
SER
46
n
45
SER
46
A
ARG
47
n
46
ARG
47
A
SER
48
n
47
SER
48
A
LEU
49
n
48
LEU
49
A
LYS
50
n
49
LYS
50
A
MSE
51
n
50
MSE
51
A
ARG
52
n
51
ARG
52
A
GLY
53
n
52
GLY
53
A
GLN
54
n
53
GLN
54
A
ALA
55
n
54
ALA
55
A
PHE
56
n
55
PHE
56
A
VAL
57
n
56
VAL
57
A
ILE
58
n
57
ILE
58
A
PHE
59
n
58
PHE
59
A
LYS
60
n
59
LYS
60
A
GLU
61
n
60
GLU
61
A
VAL
62
n
61
VAL
62
A
SER
63
n
62
SER
63
A
SER
64
n
63
SER
64
A
ALA
65
n
64
ALA
65
A
THR
66
n
65
THR
66
A
ASN
67
n
66
ASN
67
A
ALA
68
n
67
ALA
68
A
LEU
69
n
68
LEU
69
A
ARG
70
n
69
ARG
70
A
SER
71
n
70
SER
71
A
MSE
72
n
71
MSE
72
A
GLN
73
n
72
GLN
73
A
GLY
74
n
73
GLY
74
A
PHE
75
n
74
PHE
75
A
PRO
76
n
75
PRO
76
A
PHE
77
n
76
PHE
77
A
TYR
78
n
77
TYR
78
A
ASP
79
n
78
ASP
79
A
LYS
80
n
79
LYS
80
A
PRO
81
n
80
PRO
81
A
MSE
82
n
81
MSE
82
A
ARG
83
n
82
ARG
83
A
ILE
84
n
83
ILE
84
A
GLN
85
n
84
GLN
85
A
TYR
86
n
85
TYR
86
A
ALA
87
n
86
ALA
87
A
LYS
88
n
87
LYS
88
A
THR
89
n
88
THR
89
A
ASP
90
n
89
ASP
90
A
SER
91
n
90
SER
91
A
ASP
92
n
91
ASP
92
A
ILE
93
n
92
ILE
93
A
ILE
94
n
93
ILE
94
A
ALA
95
n
94
ALA
95
A
LYS
96
n
95
LYS
96
A
MSE
97
n
96
MSE
97
A
LYS
98
n
97
LYS
98
A
author_defined_assembly
2
dimeric
B
G
106
A
OP2
G
6
1_555
B
MG
403
E
MG
MG
1_555
B
G
106
A
O5'
G
6
1_555
53.8
B
G
106
A
OP2
G
6
1_555
B
MG
403
E
MG
MG
1_555
B
C
107
A
OP2
C
7
1_555
132.1
B
G
106
A
O5'
G
6
1_555
B
MG
403
E
MG
MG
1_555
B
C
107
A
OP2
C
7
1_555
86.3
B
G
170
A
O6
G
70
1_555
B
MG
402
D
MG
MG
1_555
B
G
170
A
N7
G
70
1_555
67.1
A
MSE
51
SELENOMETHIONINE
B
MSE
50
MET
A
MSE
72
SELENOMETHIONINE
B
MSE
71
MET
A
MSE
82
SELENOMETHIONINE
B
MSE
81
MET
A
MSE
97
SELENOMETHIONINE
B
MSE
96
MET
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
A
O
GLN
85
B
O
GLN
84
A
N
TYR
13
B
N
TYR
12
A
O
ILE
12
B
O
ILE
11
A
N
VAL
57
B
N
VAL
56
A
O
PHE
56
B
O
PHE
55
A
N
LEU
44
B
N
LEU
43
1
A
ALA
2
B
ALA
1
1
Y
1
A
VAL
3
B
VAL
2
1
Y
1
B
C3'
C
122
PLANAR
1
B
C3'
C
163
PLANAR
1
13.55
1.60
113.70
127.25
B
B
B
C2'
C3'
O3'
C
C
C
122
122
122
N
1
7.84
1.30
114.00
121.84
B
B
B
N1
C1'
C2'
U
U
U
150
150
150
N
1
18.00
1.60
113.70
131.70
B
B
B
C2'
C3'
O3'
C
C
C
152
152
152
N
1
14.61
1.60
113.70
128.31
B
B
B
C2'
C3'
O3'
C
C
C
163
163
163
N
1
12.51
1.60
113.70
126.21
B
B
B
C2'
C3'
O3'
G
G
G
164
164
164
N
1
A
A
O
O
HOH
HOH
312
312
1.00
1_555
4_555
1
A
A
O
O
HOH
HOH
303
303
1.26
1_555
4_555
1
A
GLU
5
174.95
179.71
1
A
PRO
8
-49.87
154.70
1
A
ASN
16
71.30
32.70
1
A
MSE
97
-103.90
-87.73
PROTEIN_REP.PARAM
PROTEIN.TOP
DNA-RNA_REP.PARAM
DNA-RNA.TOP
WATER_REP.PARAM
WATER.TOP
ION.PARAM
ION.TOP
76.2
-10.0
0.08
0.00
-10.0
0.00
20.09
0.2840000
0.007
0.2810000
0.2810000
2.3
20
1861
18903
18903
9.8
95.6
RANDOM
2082995.34
1
RESTRAINED
THROUGHOUT
0.0
MAD
FLAT MODEL
43.30
0.336
0.49
0.47
5.00
0.52
0.58
2.3
20
19
2366
13
1532
802
0.010
1.4
20.3
1.93
0.44
1.00
0.80
1.00
0.48
2.00
0.73
2.00
0.3990000
0.023
0.4260000
2.44
295
2841
6
9.4
96.5
47.8
2.9
41.3
1DRZ
17817
17817
0
0.0650000
1
21.7
3.1
95.7
0.3180000
2.9
3.0
5.2
3.1
97.6
phasing
SOLVE
phasing
SHARP
refinement
CNS
0.3
data reduction
DENZO
data scaling
SCALEPACK
U1A SPLICEOSOMAL PROTEIN/HEPATITIS DELTA VIRUS GENOMIC RIBOZYME COMPLEX
1
N
N
2
N
N
3
N
N
3
N
N
3
N
N
4
N
N
4
N
N
5
N
N
5
N
N
A
LYS
23
B
LYS
22
HELX_P
A
PHE
37
B
PHE
36
1
1
15
A
VAL
62
B
VAL
61
HELX_P
A
ARG
70
B
ARG
69
1
2
9
A
ASP
92
B
ASP
91
HELX_P
A
ALA
95
B
ALA
94
1
3
4
covale
1.329
both
A
LYS
50
B
C
LYS
49
1_555
A
MSE
51
B
N
MSE
50
1_555
covale
1.331
both
A
MSE
51
B
C
MSE
50
1_555
A
ARG
52
B
N
ARG
51
1_555
covale
1.327
both
A
A
SER
71
B
C
SER
70
1_555
A
MSE
72
B
N
MSE
71
1_555
covale
1.327
both
B
A
SER
71
B
C
SER
70
1_555
A
MSE
72
B
N
MSE
71
1_555
covale
1.320
both
A
MSE
72
B
C
MSE
71
1_555
A
GLN
73
B
N
GLN
72
1_555
covale
1.316
both
A
PRO
81
B
C
PRO
80
1_555
A
MSE
82
B
N
MSE
81
1_555
covale
1.346
both
A
MSE
82
B
C
MSE
81
1_555
A
ARG
83
B
N
ARG
82
1_555
covale
1.327
both
A
LYS
96
B
C
LYS
95
1_555
A
MSE
97
B
N
MSE
96
1_555
covale
1.332
both
A
MSE
97
B
C
MSE
96
1_555
A
LYS
98
B
N
LYS
97
1_555
metalc
2.678
B
G
106
A
OP2
G
6
1_555
B
MG
403
E
MG
MG
1_555
metalc
2.882
B
G
106
A
O5'
G
6
1_555
B
MG
403
E
MG
MG
1_555
metalc
2.855
B
C
107
A
OP2
C
7
1_555
B
MG
403
E
MG
MG
1_555
metalc
3.027
B
G
170
A
O6
G
70
1_555
B
MG
402
D
MG
MG
1_555
metalc
2.569
B
G
170
A
N7
G
70
1_555
B
MG
402
D
MG
MG
1_555
hydrog
TYPE_28_PAIR
B
G
101
A
N1
G
1
1_555
B
U
137
A
O2
U
37
1_555
hydrog
TYPE_28_PAIR
B
G
101
A
O6
G
1
1_555
B
U
137
A
N3
U
37
1_555
hydrog
WATSON-CRICK
B
G
102
A
N1
G
2
1_555
B
C
136
A
N3
C
36
1_555
hydrog
WATSON-CRICK
B
G
102
A
N2
G
2
1_555
B
C
136
A
O2
C
36
1_555
hydrog
WATSON-CRICK
B
G
102
A
O6
G
2
1_555
B
C
136
A
N4
C
36
1_555
hydrog
WATSON-CRICK
B
C
103
A
N3
C
3
1_555
B
G
135
A
N1
G
35
1_555
hydrog
WATSON-CRICK
B
C
103
A
N4
C
3
1_555
B
G
135
A
O6
G
35
1_555
hydrog
WATSON-CRICK
B
C
103
A
O2
C
3
1_555
B
G
135
A
N2
G
35
1_555
hydrog
WATSON-CRICK
B
C
104
A
N3
C
4
1_555
B
G
134
A
N1
G
34
1_555
hydrog
WATSON-CRICK
B
C
104
A
N4
C
4
1_555
B
G
134
A
O6
G
34
1_555
hydrog
WATSON-CRICK
B
C
104
A
O2
C
4
1_555
B
G
134
A
N2
G
34
1_555
hydrog
WATSON-CRICK
B
G
105
A
N1
G
5
1_555
B
C
133
A
N3
C
33
1_555
hydrog
WATSON-CRICK
B
G
105
A
N2
G
5
1_555
B
C
133
A
O2
C
33
1_555
hydrog
WATSON-CRICK
B
G
105
A
O6
G
5
1_555
B
C
133
A
N4
C
33
1_555
hydrog
WATSON-CRICK
B
G
106
A
N1
G
6
1_555
B
C
132
A
N3
C
32
1_555
hydrog
WATSON-CRICK
B
G
106
A
N2
G
6
1_555
B
C
132
A
O2
C
32
1_555
hydrog
WATSON-CRICK
B
G
106
A
O6
G
6
1_555
B
C
132
A
N4
C
32
1_555
hydrog
WATSON-CRICK
B
C
107
A
N3
C
7
1_555
B
G
131
A
N1
G
31
1_555
hydrog
WATSON-CRICK
B
C
107
A
N4
C
7
1_555
B
G
131
A
O6
G
31
1_555
hydrog
WATSON-CRICK
B
C
107
A
O2
C
7
1_555
B
G
131
A
N2
G
31
1_555
hydrog
WATSON-CRICK
B
G
111
A
N1
G
11
1_555
B
C
172
A
N3
C
72
1_555
hydrog
WATSON-CRICK
B
G
111
A
N2
G
11
1_555
B
C
172
A
O2
C
72
1_555
hydrog
WATSON-CRICK
B
G
111
A
O6
G
11
1_555
B
C
172
A
N4
C
72
1_555
hydrog
WATSON-CRICK
B
U
112
A
N3
U
12
1_555
B
A
171
A
N1
A
71
1_555
hydrog
WATSON-CRICK
B
U
112
A
O4
U
12
1_555
B
A
171
A
N6
A
71
1_555
hydrog
WATSON-CRICK
B
C
113
A
N3
C
13
1_555
B
G
170
A
N1
G
70
1_555
hydrog
WATSON-CRICK
B
C
113
A
N4
C
13
1_555
B
G
170
A
O6
G
70
1_555
hydrog
WATSON-CRICK
B
C
113
A
O2
C
13
1_555
B
G
170
A
N2
G
70
1_555
hydrog
WATSON-CRICK
B
C
114
A
N3
C
14
1_555
B
G
169
A
N1
G
69
1_555
hydrog
WATSON-CRICK
B
C
114
A
N4
C
14
1_555
B
G
169
A
O6
G
69
1_555
hydrog
WATSON-CRICK
B
C
114
A
O2
C
14
1_555
B
G
169
A
N2
G
69
1_555
hydrog
WATSON-CRICK
B
C
115
A
N3
C
15
1_555
B
G
168
A
N1
G
68
1_555
hydrog
WATSON-CRICK
B
C
115
A
N4
C
15
1_555
B
G
168
A
O6
G
68
1_555
hydrog
WATSON-CRICK
B
C
115
A
O2
C
15
1_555
B
G
168
A
N2
G
68
1_555
hydrog
A-U PAIR
B
A
116
A
N1
A
16
1_555
B
U
167
A
N3
U
67
1_555
hydrog
WATSON-CRICK
B
G
117
A
N1
G
17
1_555
B
C
130
A
N3
C
30
1_555
hydrog
WATSON-CRICK
B
G
117
A
N2
G
17
1_555
B
C
130
A
O2
C
30
1_555
hydrog
WATSON-CRICK
B
G
117
A
O6
G
17
1_555
B
C
130
A
N4
C
30
1_555
hydrog
WATSON-CRICK
B
C
118
A
N3
C
18
1_555
B
G
129
A
N1
G
29
1_555
hydrog
WATSON-CRICK
B
C
118
A
N4
C
18
1_555
B
G
129
A
O6
G
29
1_555
hydrog
WATSON-CRICK
B
C
118
A
O2
C
18
1_555
B
G
129
A
N2
G
29
1_555
hydrog
WATSON-CRICK
B
C
119
A
N3
C
19
1_555
B
G
128
A
N1
G
28
1_555
hydrog
WATSON-CRICK
B
C
119
A
N4
C
19
1_555
B
G
128
A
O6
G
28
1_555
hydrog
WATSON-CRICK
B
C
119
A
O2
C
19
1_555
B
G
128
A
N2
G
28
1_555
hydrog
WATSON-CRICK
B
C
121
A
N3
C
21
1_555
B
G
139
A
N1
G
39
1_555
hydrog
WATSON-CRICK
B
C
121
A
N4
C
21
1_555
B
G
139
A
O6
G
39
1_555
hydrog
WATSON-CRICK
B
C
121
A
O2
C
21
1_555
B
G
139
A
N2
G
39
1_555
hydrog
C-A MISPAIR
B
C
121
A
O2
C
21
1_555
B
A
142
A
N6
A
42
1_555
hydrog
WATSON-CRICK
B
C
122
A
N3
C
22
1_555
B
G
138
A
N1
G
38
1_555
hydrog
WATSON-CRICK
B
C
122
A
N4
C
22
1_555
B
G
138
A
O6
G
38
1_555
hydrog
WATSON-CRICK
B
C
122
A
O2
C
22
1_555
B
G
138
A
N2
G
38
1_555
hydrog
G-A MISPAIR
B
G
129
A
N2
G
29
1_555
B
A
166
A
N3
A
66
1_555
hydrog
G-A MISPAIR
B
G
140
A
N3
G
40
1_555
B
A
142
A
N6
A
42
1_555
hydrog
G-G MISPAIR
B
G
140
A
N2
G
40
1_555
B
G
162
A
O6
G
62
1_555
hydrog
C-G PAIR
B
C
141
A
N4
C
41
1_555
B
G
161
A
N7
G
61
1_555
hydrog
TYPE_8_PAIR
B
A
143
A
N1
A
43
1_555
B
G
162
A
N1
G
62
1_555
hydrog
TYPE_8_PAIR
B
A
143
A
N6
A
43
1_555
B
G
162
A
O6
G
62
1_555
hydrog
WATSON-CRICK
B
C
144
A
N3
C
44
1_555
B
G
161
A
N1
G
61
1_555
hydrog
WATSON-CRICK
B
C
144
A
N4
C
44
1_555
B
G
161
A
O6
G
61
1_555
hydrog
WATSON-CRICK
B
C
144
A
O2
C
44
1_555
B
G
161
A
N2
G
61
1_555
hydrog
WATSON-CRICK
B
A
145
A
N1
A
45
1_555
B
U
160
A
N3
U
60
1_555
hydrog
WATSON-CRICK
B
A
145
A
N6
A
45
1_555
B
U
160
A
O4
U
60
1_555
hydrog
WATSON-CRICK
B
C
146
A
N3
C
46
1_555
B
G
159
A
N1
G
59
1_555
hydrog
WATSON-CRICK
B
C
146
A
N4
C
46
1_555
B
G
159
A
O6
G
59
1_555
hydrog
WATSON-CRICK
B
C
146
A
O2
C
46
1_555
B
G
159
A
N2
G
59
1_555
hydrog
WATSON-CRICK
B
C
147
A
N3
C
47
1_555
B
G
158
A
N1
G
58
1_555
hydrog
WATSON-CRICK
B
C
147
A
N4
C
47
1_555
B
G
158
A
O6
G
58
1_555
hydrog
WATSON-CRICK
B
C
147
A
O2
C
47
1_555
B
G
158
A
N2
G
58
1_555
hydrog
U-C MISPAIR
B
U
155
A
O2
U
55
1_555
B
C
156
A
N4
C
56
1_555
RNA BINDING PROTEIN/RNA
CATALYTIC RNA, RIBOZYME, RNA-BINDING PROTEIN, U1A, HDV, RNA BINDING PROTEIN-RNA COMPLEX
SNRPA_HUMAN
UNP
2
P09012
1DRZ
PDB
1
1DRZ
2
98
1DRZ
2
98
P09012
A
1
1
97
101
172
1DRZ
101
172
1DRZ
B
2
1
72
1
TYR
engineered mutation
HIS
31
1DRZ
A
P09012
UNP
31
30
1
GLN
engineered mutation
ARG
36
1DRZ
A
P09012
UNP
36
35
4
anti-parallel
anti-parallel
anti-parallel
A
ILE
84
B
ILE
83
A
TYR
86
B
TYR
85
A
THR
11
B
THR
10
A
ILE
14
B
ILE
13
A
ALA
55
B
ALA
54
A
PHE
59
B
PHE
58
A
ILE
40
B
ILE
39
A
VAL
45
B
VAL
44
BINDING SITE FOR RESIDUE MG B 402
B
MG
402
Software
2
BINDING SITE FOR RESIDUE MG B 403
B
MG
403
Software
2
BINDING SITE FOR RESIDUE SO4 A 404
A
SO4
404
Software
2
BINDING SITE FOR RESIDUE SO4 A 405
A
SO4
405
Software
3
B
G
169
A
G
69
2
1_555
B
G
170
A
G
70
2
1_555
B
G
106
A
G
6
2
1_555
B
C
107
A
C
7
2
1_555
A
ARG
36
B
ARG
35
2
1_555
A
SER
71
B
SER
70
2
1_555
A
SER
63
B
SER
62
3
1_555
A
ASN
67
B
ASN
66
3
1_555
A
HOH
314
I
HOH
3
1_555
155
trigonal
H 3 2