Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb2o451A.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
Source: Resolution 3.60 ANGSTROMS.
Position (806, 877), (816, 867)
Primary structure ('_': anchors) _UGUUGACCA_-_CGCGUUUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 4: C4'-exo, 5: C4'-exo, 7: C2'-exo, 8: C2'-exo, 17: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 7 8 ↑
3 8 9 ↑
4 10 11 ↑
5 10 14 →
6 12 13 ↑
7 14 15 ↑
8 20 21 ↑
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 4 20 Hoogsteen/Sugar trans y
3 5 21 Watson-Crick/Watson-Crick cis y
4 6 7 Hoogsteen/Hoogsteen cis y
5 6 17 Watson-Crick/Bifurcated trans y
6 6 19 O2'/Bifurcated ?
7 6 20 Sugar/O2' ?
8 8 15 Watson-Crick/Watson-Crick cis y
9 8 16 Watson-Crick/Watson-Crick cis
10 9 14 Watson-Crick/Watson-Crick cis
11 11 12 Watson-Crick/Watson-Crick cis
12 15 17 Hoogsteen/Hoogsteen cis y
13 16 17 Hoogsteen/Hoogsteen cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters