Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb1w2b10.n553-588
Source: [PDB-id:chain] 1w2b:0 (&rarr PDB)
Source: Information TRIGGER FACTOR RIBOSOME BINDING DOMAIN IN COMPLEX WITH 50S
Source: Compound 23S RRNA
Source: Resolution 3.50 ANGSTROMS.
Position (554, 587), (564, 577)
Primary structure ('_': anchors) _CGAAUGACC_-_CAGUAAGAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		14: C4'-exo, 15: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 19 &larr
4 4 5 ↑
5 5 6 ↑
6 6 7 ↑
7 7 15 &larr
8 8 9 ↑
9 8 17 →
10 9 10 ↑
11 10 11 ↑
12 12 13 ↑
13 13 14 &larr
14 14 16 →
15 17 18 ↑
16 18 19 ↑
17 20 21 ↑
18 21 22 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 22 Watson-Crick/Watson-Crick cis
2 2 21 Watson-Crick/Watson-Crick cis y
3 3 20 O2'/Bifurcated ?
4 4 19 O2'/Bifurcated ?
5 5 19 O2'/Bifurcated trans
6 6 18 Watson-Crick/Watson-Crick cis
7 7 15 O2'/Watson-Crick ?
8 7 16 O2'/Watson-Crick ?
9 7 17 Bifurcated/O2' trans y
10 8 15 Bifurcated/O2' ?
11 8 16 Watson-Crick/Hoogsteen trans
12 9 14 Bifurcated/O2' ?
13 10 13 Watson-Crick/Watson-Crick cis y
14 11 12 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters