Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2o44FA.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
FLIPPED INTERNAL
Source: Resolution 3.30 ANGSTROMS.
Position (2731, 2762), (2740, 2753)
Primary structure ('_': anchors) _UCAGCGGA_-_GCGUGCAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 3: C2'-exo, 4: C4'-exo, 8: C4'-exo, 9: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn, 14: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 17 →
2 5 6 ↑
3 6 7 ↑
4 9 10 &larr
5 11 12 ↑
6 12 13 ↑
7 16 17 ↑
8 18 19 ↑
9 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 4 18 Watson-Crick/Watson-Crick cis
3 5 17 Watson-Crick/Bifurcated cis y
4 7 13 O2'/Hoogsteen ?
5 7 14 Sugar/O2' ?
6 7 15 Hoogsteen/Sugar trans
7 8 14 O2'/Bifurcated ?
8 9 12 Hoogsteen/Hoogsteen cis y
9 9 13 Watson-Crick/O2' ?
10 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters