1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Brodsky, A.S.
Williamson, J.R.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
1
90.00
90.00
90.00
1.000
1.000
1.000
C10 H14 N5 O7 P
347.221
y
ADENOSINE-5'-MONOPHOSPHATE
RNA linking
C6 H15 N4 O2 1
175.209
y
ARGININE
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
C9 H13 N2 O9 P
324.181
y
URIDINE-5'-MONOPHOSPHATE
RNA linking
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
267
624
639
10.1006/jmbi.1996.0879
9126842
Solution structure of the HIV-2 TAR-argininamide complex.
1997
US
J.Am.Chem.Soc.
JACSAT
0004
0002-7863
118
519
Geometric Parameters in Nucleic Acids: Sugar and Phosphate Constituents
1996
UK
J.Mol.Biol.
JMOBAK
0070
0022-2836
253
313
The Structure of the Human Immunodeficiency Virus Type-1 Tar RNA Reveals Principles of RNA Recognition by Tat Protein
1995
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
90
3680
Role of RNA Structure in Arginine Recognition of Tar RNA
1993
US
Science
SCIEAS
0038
0036-8075
257
76
Conformation of the Tar RNA-Arginine Complex by NMR Spectroscopy
1992
10.2210/pdb1akx/pdb
pdb_00001akx
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
9652.761
TAR RNA
1
syn
polymer
175.209
ARGININE
1
syn
non-polymer
TAR
no
no
GGCCAGAUUGAGCCUGGGAGCUCUCUGGCC
GGCCAGAUUGAGCCUGGGAGCUCUCUGGCC
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
-27.968
1
19
A
16
A
46
2.084
A_G16:C46_A
1
-19.553
-0.968
-0.500
-0.155
-10.747
1
19
A
17
A
45
1.532
A_G17:C45_A
2
-13.020
-0.109
0.306
-0.095
-0.040
1
19
A
18
A
44
-0.764
A_C18:G44_A
3
-14.641
-0.393
0.357
-0.073
2.523
1
19
A
19
A
43
-1.218
A_C19:G43_A
4
-16.093
-0.389
0.494
-0.084
0.732
1
20
A
20
A
42
0.750
A_A20:U42_A
5
-14.127
0.066
0.839
-0.291
-1.954
1
19
A
21
A
41
1.886
A_G21:C41_A
6
-20.319
0.100
0.473
-0.156
-7.025
1
20
A
22
A
40
-12.391
A_A22:U40_A
7
-25.893
0.275
0.782
-0.291
-15.655
1
19
A
26
A
39
-4.695
A_G26:C39_A
8
-21.388
-0.887
0.201
-0.332
-2.690
1
20
A
27
A
38
-4.816
A_A27:U38_A
9
-6.248
-0.181
0.500
-0.171
14.424
1
19
A
28
A
37
-2.587
A_G28:C37_A
10
-9.949
-0.083
0.781
-0.145
14.752
1
19
A
29
A
36
-2.367
A_C29:G36_A
11
-20.906
1.213
0.037
-0.426
-39.643
A
32
A
33
-4.402
A_G32:G33_A
12
-21.089
-6.437
2.155
0.602
2.617
33.130
A
A
16
17
4.535
A
A
46
45
2.766
2.574
0.224
-1.057
AA_G16G17:C45C46_AA
1
-4.901
8.633
32.677
-2.212
-1.077
2.860
33.510
A
A
17
18
-2.629
A
A
45
44
2.787
-1.515
-0.146
-1.911
AA_G17C18:G44C45_AA
2
1.484
-2.575
33.444
-3.099
0.464
2.488
29.344
A
A
18
19
9.254
A
A
44
43
2.862
4.668
0.287
-2.106
AA_C18C19:G43G44_AA
3
-1.019
2.021
28.961
-4.984
-0.747
2.979
36.162
A
A
19
20
-0.956
A
A
43
42
2.974
-0.592
0.048
-1.776
AA_C19A20:U42G43_AA
4
-4.034
6.512
35.939
-2.785
-0.597
3.905
36.965
A
A
20
21
-17.725
A
A
42
41
3.552
-11.057
0.367
-1.680
AA_A20G21:C41U42_AA
5
3.927
-6.296
35.116
-0.904
0.041
3.578
36.662
A
A
21
22
-13.828
A
A
41
40
3.267
-8.620
-0.498
-1.826
AA_G21A22:U40C41_AA
6
1.286
-2.064
35.646
-1.648
0.979
2.996
46.340
A
A
22
26
-1.022
A
A
40
39
2.756
-0.803
-2.250
-1.555
AA_A22G26:C39U40_AA
7
-5.001
6.366
46.077
-1.916
2.485
3.058
29.281
A
A
26
27
-9.493
A
A
39
38
2.772
-4.778
0.099
-2.035
AA_G26A27:U38C39_AA
8
-0.695
1.380
28.889
-3.099
-0.330
2.979
32.167
A
A
27
28
-11.684
A
A
38
37
2.731
-6.423
0.101
-1.652
AA_A27G28:C37U38_AA
9
-3.079
5.602
31.388
-1.966
-0.669
3.224
40.593
A
A
28
29
-3.572
A
A
37
36
3.125
-2.472
0.315
-1.508
AA_G28C29:G36C37_AA
10
4.288
-6.194
40.303
-1.905
0.011
database_2
pdbx_database_status
pdbx_struct_assembly
pdbx_struct_oper_list
struct_site
repository
Initial release
Version format compliance
Version format compliance
Database references
Derived calculations
Other
1
0
1997-11-19
1
1
2008-03-24
1
2
2011-07-13
1
3
2022-02-16
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.process_site
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
ENSEMBLE OF 20 STRUCTURES
Y
BNL
1997-05-27
REL
REL
ARG
ARGININE
LEAST RESTRAINTS AND LOWEST ENERGY
20
1
SEE PAPER
6.4
298
K
RANDOM COORDINATES AND SIMULATED ANNEALING
BRUNGER
refinement
X-PLOR
3.1
structure solution
X-PLOR
3.1
500
Varian
VXR500
591
Varian
UNITYPLUS
750
HOME MADE
HOME-MADE
ARG
47
2
ARG
ARG
47
A
G
16
n
1
G
16
A
G
17
n
2
G
17
A
C
18
n
3
C
18
A
C
19
n
4
C
19
A
A
20
n
5
A
20
A
G
21
n
6
G
21
A
A
22
n
7
A
22
A
U
23
n
8
U
23
A
U
25
n
9
U
25
A
G
26
n
10
G
26
A
A
27
n
11
A
27
A
G
28
n
12
G
28
A
C
29
n
13
C
29
A
C
30
n
14
C
30
A
U
31
n
15
U
31
A
G
32
n
16
G
32
A
G
33
n
17
G
33
A
G
34
n
18
G
34
A
A
35
n
19
A
35
A
G
36
n
20
G
36
A
C
37
n
21
C
37
A
U
38
n
22
U
38
A
C
39
n
23
C
39
A
U
40
n
24
U
40
A
C
41
n
25
C
41
A
U
42
n
26
U
42
A
G
43
n
27
G
43
A
G
44
n
28
G
44
A
C
45
n
29
C
45
A
C
46
n
30
C
46
A
author_defined_assembly
1
monomeric
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
OXT
ARG
47
B
OXT
ARG
1
1
N
1
A
ARG
47
0.209
SIDE CHAIN
model building
X-PLOR
3.1
refinement
X-PLOR
3.1
phasing
X-PLOR
3.1
HIV-2 TRANS ACTIVATING REGION RNA COMPLEX WITH ARGININAMIDE, NMR, MINIMIZED AVERAGE STRUCTURE
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
G
16
A
N1
G
1
1_555
A
C
46
A
N3
C
30
1_555
hydrog
WATSON-CRICK
A
G
16
A
N2
G
1
1_555
A
C
46
A
O2
C
30
1_555
hydrog
WATSON-CRICK
A
G
16
A
O6
G
1
1_555
A
C
46
A
N4
C
30
1_555
hydrog
WATSON-CRICK
A
G
17
A
N1
G
2
1_555
A
C
45
A
N3
C
29
1_555
hydrog
WATSON-CRICK
A
G
17
A
N2
G
2
1_555
A
C
45
A
O2
C
29
1_555
hydrog
WATSON-CRICK
A
G
17
A
O6
G
2
1_555
A
C
45
A
N4
C
29
1_555
hydrog
WATSON-CRICK
A
C
18
A
N3
C
3
1_555
A
G
44
A
N1
G
28
1_555
hydrog
WATSON-CRICK
A
C
18
A
N4
C
3
1_555
A
G
44
A
O6
G
28
1_555
hydrog
WATSON-CRICK
A
C
18
A
O2
C
3
1_555
A
G
44
A
N2
G
28
1_555
hydrog
WATSON-CRICK
A
C
19
A
N3
C
4
1_555
A
G
43
A
N1
G
27
1_555
hydrog
WATSON-CRICK
A
C
19
A
N4
C
4
1_555
A
G
43
A
O6
G
27
1_555
hydrog
WATSON-CRICK
A
C
19
A
O2
C
4
1_555
A
G
43
A
N2
G
27
1_555
hydrog
WATSON-CRICK
A
A
20
A
N1
A
5
1_555
A
U
42
A
N3
U
26
1_555
hydrog
WATSON-CRICK
A
A
20
A
N6
A
5
1_555
A
U
42
A
O4
U
26
1_555
hydrog
WATSON-CRICK
A
G
21
A
N1
G
6
1_555
A
C
41
A
N3
C
25
1_555
hydrog
WATSON-CRICK
A
G
21
A
N2
G
6
1_555
A
C
41
A
O2
C
25
1_555
hydrog
WATSON-CRICK
A
G
21
A
O6
G
6
1_555
A
C
41
A
N4
C
25
1_555
hydrog
A-C MISPAIR
A
A
22
A
N1
A
7
1_555
A
C
39
A
N4
C
23
1_555
hydrog
WATSON-CRICK
A
A
22
A
N1
A
7
1_555
A
U
40
A
N3
U
24
1_555
hydrog
WATSON-CRICK
A
A
22
A
N6
A
7
1_555
A
U
40
A
O4
U
24
1_555
hydrog
WATSON-CRICK
A
G
26
A
N1
G
10
1_555
A
C
39
A
N3
C
23
1_555
hydrog
WATSON-CRICK
A
G
26
A
N2
G
10
1_555
A
C
39
A
O2
C
23
1_555
hydrog
WATSON-CRICK
A
G
26
A
O6
G
10
1_555
A
C
39
A
N4
C
23
1_555
hydrog
WATSON-CRICK
A
A
27
A
N1
A
11
1_555
A
U
38
A
N3
U
22
1_555
hydrog
WATSON-CRICK
A
A
27
A
N6
A
11
1_555
A
U
38
A
O4
U
22
1_555
hydrog
WATSON-CRICK
A
G
28
A
N1
G
12
1_555
A
C
37
A
N3
C
21
1_555
hydrog
WATSON-CRICK
A
G
28
A
N2
G
12
1_555
A
C
37
A
O2
C
21
1_555
hydrog
WATSON-CRICK
A
G
28
A
O6
G
12
1_555
A
C
37
A
N4
C
21
1_555
hydrog
WATSON-CRICK
A
C
29
A
N3
C
13
1_555
A
G
36
A
N1
G
20
1_555
hydrog
WATSON-CRICK
A
C
29
A
N4
C
13
1_555
A
G
36
A
O6
G
20
1_555
hydrog
WATSON-CRICK
A
C
29
A
O2
C
13
1_555
A
G
36
A
N2
G
20
1_555
hydrog
G-G MISPAIR
A
G
32
A
N2
G
16
1_555
A
G
33
A
O6
G
17
1_555
RNA
TRANSCRIPTIONAL ACTIVATION, COMPLEX (RNA-LIGAND), PROTEIN-RNA INTERACTIONS, RNA
1AKX
PDB
1
1AKX
16
46
1AKX
16
46
1AKX
A
1
1
30
BINDING SITE FOR RESIDUE ARG A 47
A
ARG
47
Software
4
A
A
22
A
A
7
4
1_555
A
U
23
A
U
8
4
1_555
A
G
26
A
G
10
4
1_555
A
C
37
A
C
21
4
1_555
1
P 1