Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-5-Internal Loop pdb1p9x10.n2611-2629
Source: [PDB-id:chain] 1p9x:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TELITHROMYCIN KETOLIDE ANTIBIOTIC
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.40 ANGSTROMS.
Position (2605, 2635), (2611, 2629)
Primary structure ('_': anchors) _AUAAC_-_GGAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 5 ↑
4 4 11 →
5 5 6 ↑
6 8 9 ↑
7 9 10 ↑
8 11 13 ↑
9 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 3 11 Hoogsteen/Watson-Crick trans
3 4 10 O2'/Bifurcated ?
4 5 6 Bifurcated/O2' ?
5 5 10 Sugar/Hoogsteen trans y
6 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters