Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb3ccjF9.n16-64
Source: [PDB-id:chain] 3ccj:9 (&rarr PDB)
Source: Information STRUCTURE OF ANISOMYCIN RESISTANT 50S RIBOSOMAL SUBUNIT: 23S RRNA MUTATION C2534U
Source: Compound 5S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.70 ANGSTROMS.
Position (20, 60), (30, 50)
Primary structure ('_': anchors) _AAGAUAAGC_-_GGUUGCCUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 6: C2'-endo, 10: C3'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 3 4 →
3 4 5 &larr
4 6 7 ↑
5 6 20 &larr
6 7 8 ↑
7 8 9 ↑
8 10 11 ↑
9 14 15 ↑
10 15 16 ↑
11 16 17 ↑
12 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 3 Bifurcated/O2' ?
3 3 14 Sugar/O2' ?
4 3 15 Watson-Crick/Bifurcated cis y
5 3 20 Watson-Crick/Watson-Crick trans y
6 4 14 Bifurcated/O2' trans y
7 5 7 Hoogsteen/O2' cis y
8 5 13 Watson-Crick/O2' cis y
9 6 20 O2'/Hoogsteen ?
10 9 10 Hoogsteen/Sugar cis y
11 9 12 Watson-Crick/O2' cis y
12 11 12 Watson-Crick/Watson-Crick cis
13 16 20 Watson-Crick/Sugar trans
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters