Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb2o45FA.n803-880
Source: [PDB-id:chain] 2o45:A (&rarr PDB)
Source: Information STRUCTURE OF THE 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH THE MACROLIDE RU-69874
Source: Compound 23S RRNA
FLIPPED INTERNAL
Source: Resolution 3.60 ANGSTROMS.
Position (806, 877), (816, 867)
Primary structure ('_': anchors) _CGCGUUUAG_-_UGUUGACCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		6: C4'-exo, 15: C2'-exo, 16: C2'-exo, 18: C4'-exo, 19: C4'-exo, 20: 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 2 3 ↑
3 8 9 ↑
4 9 13 →
5 10 11 ↑
6 12 13 ↑
7 14 15 ↑
8 15 16 ↑
9 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 18 Watson-Crick/Watson-Crick cis y
3 3 17 Sugar/O2' ?
4 3 19 Hoogsteen/Sugar trans y
5 4 17 O2'/Bifurcated ?
6 6 7 Hoogsteen/Hoogsteen cis y
7 6 8 Hoogsteen/Hoogsteen cis y
8 6 17 Watson-Crick/Bifurcated trans y
9 7 15 Watson-Crick/Watson-Crick cis
10 8 15 Watson-Crick/Watson-Crick cis y
11 9 14 Watson-Crick/Watson-Crick cis
12 11 12 Watson-Crick/Watson-Crick cis
13 16 17 Hoogsteen/Hoogsteen cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters