1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Gerdeman, M.S.
Henkin, T.M.
Hines, J.V.
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
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
326
189
201
10.1016/S0022-2836(02)01339-6
12547201
Solution Structure of the Bacillus subtilis T-box Antiterminator RNA: Seven Nucleotide
Bulge Characterized by Stacking and Flexibility
2003
10.2210/pdb1n53/pdb
pdb_00001n53
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
5231.199
RNA (5'-R(*GP*AP*GP*GP*GP*UP*GP*GP*AP*AP*CP*CP*GP*CP*GP*C)-3')
1
syn
polymer
2783.695
RNA (5'-R(*GP*CP*GP*UP*CP*CP*CP*UP*C)-3')
1
syn
polymer
no
no
GAGGGUGGAACCGCGC
GAGGGUGGAACCGCGC
A
polyribonucleotide
no
no
GCGUCCCUC
GCGUCCCUC
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
-11.901
1
19
A
1
B
25
-2.695
A_G1:C25_B
1
-20.552
-0.288
0.133
-0.307
9.317
1
20
A
2
B
24
-9.379
A_A2:U24_B
2
-13.270
0.377
0.971
-0.392
30.482
1
19
A
3
B
23
-7.357
A_G3:C23_B
3
-12.115
-0.039
1.123
-0.282
19.614
1
19
A
4
B
22
3.773
A_G4:C22_B
4
-23.793
-0.402
0.365
-0.344
5.661
28
A
13
B
20
-10.426
A_G13:U20_B
5
18.261
-2.796
-0.707
-0.911
18.152
1
19
A
14
B
19
-0.626
A_C14:G19_B
6
-18.539
0.395
-0.706
-0.313
-18.243
1
19
A
15
B
18
-5.713
A_G15:C18_B
7
-5.614
0.717
-2.267
-1.341
-25.722
1
19
A
16
B
17
-1.969
A_C16:G17_B
8
11.869
0.379
0.600
-0.231
2.747
34.364
A
A
1
2
-6.524
B
B
25
24
2.568
-3.811
-0.832
-0.662
AA_G1A2:U24C25_BB
1
-8.268
14.153
33.171
-0.627
0.338
2.623
43.441
A
A
2
3
-37.366
B
B
24
23
3.201
-25.957
0.661
-0.047
AA_A2G3:C23U24_BB
2
-0.933
1.343
35.126
2.445
-0.984
3.736
38.639
A
A
3
4
20.671
B
B
23
22
3.728
13.315
1.420
0.047
AA_G3G4:C22C23_BB
3
8.127
-12.616
35.461
-1.888
-0.950
3.864
32.602
A
A
13
14
-19.046
B
B
20
19
3.504
-10.493
0.565
-1.589
AA_G13C14:G19U20_BB
4
3.352
-6.084
30.733
-0.710
-0.329
4.179
45.943
A
A
14
15
29.744
B
B
19
18
4.815
22.212
0.961
-0.367
AA_C14G15:C18G19_BB
5
8.025
-10.746
39.693
-3.328
-0.198
2.858
40.940
A
A
15
16
38.587
B
B
18
17
3.909
24.573
-0.692
-0.415
AA_G15C16:G17C18_BB
6
-14.514
22.790
29.664
-3.870
-0.945
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2003-04-29
1
1
2008-04-28
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
RCSB
Y
RCSB
2002-11-04
REL
REL
Synthesized using T7 RNA polymerase
sample
Synthesized using T7 RNA polymerase
sample
This structure was determined using standard 2D and 3D homonuclear and heteronuclear NMR techniques.
The minimized average structure of the 9 lowest energy structures (all with favorable non-bond energy and the fewest number of constraint violations) is submitted.
50
1
2D NOESY
2D TOCSY
DQF-COSY
3D_13C-separated_NOESY
2D_HSQC
2D_1H_31P_HETCOR
10 mM
6.5
ambient
295
K
10 mM
6.5
ambient
277
K
A total of 313 distance constraints and 59 dihedral angle constraints were used.
distance geometry, simulated annealing, molecular dynamics
1
0.7 mM (U-15N, U-13C) or 1.2 mM (unlabeled) T box model RNA (AM1A); 10 mM sodium phosphate buffer pH 6.5, 0.01 mM EDTA
100% D2O
0.7 mM (U-15N, U-13C) or 1.2 mM (unlabeled) T box model RNA (AM1A); 10 mM sodium phosphate buffer pH 6.5, 0.01 mM EDTA
90% H2O/10% D2O
processing
Felix
95,98
Brunger
structure solution
X-PLOR
98.1
processing
XwinNMR
Brunger
refinement
X-PLOR
98.1
800
Bruker
DRX
400
Bruker
DMX
600
Bruker
DMX
G
1
n
1
G
1
A
A
2
n
2
A
2
A
G
3
n
3
G
3
A
G
4
n
4
G
4
A
G
5
n
5
G
5
A
U
6
n
6
U
6
A
G
7
n
7
G
7
A
G
8
n
8
G
8
A
A
9
n
9
A
9
A
A
10
n
10
A
10
A
C
11
n
11
C
11
A
C
12
n
12
C
12
A
G
13
n
13
G
13
A
C
14
n
14
C
14
A
G
15
n
15
G
15
A
C
16
n
16
C
16
A
G
17
n
1
G
17
B
C
18
n
2
C
18
B
G
19
n
3
G
19
B
U
20
n
4
U
20
B
C
21
n
5
C
21
B
C
22
n
6
C
22
B
C
23
n
7
C
23
B
U
24
n
8
U
24
B
C
25
n
9
C
25
B
author_defined_assembly
2
dimeric
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
HO2'
O5'
G
G
7
8
1.42
1
B
B
HO2'
O4'
C
U
23
24
1.51
1
A
B
H62
O2'
A
C
9
21
1.55
1
A
A
H2'
O4'
G
C
13
14
1.58
SOLUTION STRUCTURE OF B. SUBTILIS T BOX ANTITERMINATOR RNA
1
N
N
2
N
N
hydrog
WATSON-CRICK
A
G
1
A
N1
G
1
1_555
B
C
25
B
N3
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
N2
G
1
1_555
B
C
25
B
O2
C
9
1_555
hydrog
WATSON-CRICK
A
G
1
A
O6
G
1
1_555
B
C
25
B
N4
C
9
1_555
hydrog
WATSON-CRICK
A
A
2
A
N1
A
2
1_555
B
U
24
B
N3
U
8
1_555
hydrog
WATSON-CRICK
A
A
2
A
N6
A
2
1_555
B
U
24
B
O4
U
8
1_555
hydrog
WATSON-CRICK
A
G
3
A
N1
G
3
1_555
B
C
23
B
N3
C
7
1_555
hydrog
WATSON-CRICK
A
G
3
A
N2
G
3
1_555
B
C
23
B
O2
C
7
1_555
hydrog
WATSON-CRICK
A
G
3
A
O6
G
3
1_555
B
C
23
B
N4
C
7
1_555
hydrog
WATSON-CRICK
A
G
4
A
N1
G
4
1_555
B
C
22
B
N3
C
6
1_555
hydrog
WATSON-CRICK
A
G
4
A
N2
G
4
1_555
B
C
22
B
O2
C
6
1_555
hydrog
WATSON-CRICK
A
G
4
A
O6
G
4
1_555
B
C
22
B
N4
C
6
1_555
hydrog
TYPE_28_PAIR
A
G
13
A
N1
G
13
1_555
B
U
20
B
O2
U
4
1_555
hydrog
TYPE_28_PAIR
A
G
13
A
O6
G
13
1_555
B
U
20
B
N3
U
4
1_555
hydrog
WATSON-CRICK
A
C
14
A
N3
C
14
1_555
B
G
19
B
N1
G
3
1_555
hydrog
WATSON-CRICK
A
C
14
A
N4
C
14
1_555
B
G
19
B
O6
G
3
1_555
hydrog
WATSON-CRICK
A
C
14
A
O2
C
14
1_555
B
G
19
B
N2
G
3
1_555
hydrog
WATSON-CRICK
A
G
15
A
N1
G
15
1_555
B
C
18
B
N3
C
2
1_555
hydrog
WATSON-CRICK
A
G
15
A
N2
G
15
1_555
B
C
18
B
O2
C
2
1_555
hydrog
WATSON-CRICK
A
G
15
A
O6
G
15
1_555
B
C
18
B
N4
C
2
1_555
hydrog
WATSON-CRICK
A
C
16
A
N3
C
16
1_555
B
G
17
B
N1
G
1
1_555
hydrog
WATSON-CRICK
A
C
16
A
N4
C
16
1_555
B
G
17
B
O6
G
1
1_555
hydrog
WATSON-CRICK
A
C
16
A
O2
C
16
1_555
B
G
17
B
N2
G
1
1_555
RNA
RNA, T box, bulge
1N53
PDB
1
1N53
1N53
PDB
2
1N53
1
16
1N53
1
16
1N53
A
1
1
16
17
25
1N53
17
25
1N53
B
2
1
9
1
P 1