Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb3ccj19.n30-50
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
Source: Resolution 2.70 ANGSTROMS.
Position (20, 60), (30, 50)
Primary structure ('_': anchors) _GGUUGCCUC_-_AAGAUAAGC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		13: C3'-exo, 17: C2'-endo, 21: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		19: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 17 &larr
3 6 7 ↑
4 7 8 ↑
5 8 9 ↑
6 12 13 ↑
7 14 15 ↑
8 15 16 ↑
9 16 17 ↑
10 18 19 &larr
11 19 20 →
12 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 22 Watson-Crick/Watson-Crick cis
2 3 7 Watson-Crick/Sugar trans
3 3 17 O2'/Hoogsteen ?
4 3 20 Watson-Crick/Watson-Crick trans y
5 8 20 Watson-Crick/Bifurcated cis y
6 9 19 Bifurcated/O2' trans y
7 9 20 Sugar/O2' ?
8 10 18 Watson-Crick/O2' cis y
9 11 12 Watson-Crick/Watson-Crick cis
10 11 14 Watson-Crick/O2' cis y
11 13 14 Hoogsteen/Sugar cis y
12 16 18 Hoogsteen/O2' cis y
13 20 21 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters