Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2o441A.n2727-2766
Source: [PDB-id:chain] 2o44:A (&rarr PDB)
Source: Information STRUCTURE OF 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH THE MACROLIDE JOSAMYCIN
Source: Compound 23S RRNA
Source: Resolution 3.30 ANGSTROMS.
Position (2731, 2762), (2740, 2753)
Primary structure ('_': anchors) _GCGUGCAC_-_UCAGCGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C4'-exo, 13: C4'-exo, 17: C4'-exo, 18: C2'-exo, 19: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn, 19: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 5 ↑
4 4 17 →
5 8 9 ↑
6 9 10 ↑
7 11 12 &larr
8 14 15 ↑
9 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 3 17 Watson-Crick/Watson-Crick cis
3 4 16 Watson-Crick/Bifurcated cis y
4 6 14 Hoogsteen/Sugar trans
5 7 13 O2'/Bifurcated ?
6 7 14 Sugar/O2' ?
7 8 12 Watson-Crick/O2' ?
8 8 14 O2'/Hoogsteen ?
9 9 12 Hoogsteen/Hoogsteen cis y
10 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters