Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2ogn10.n801-885
Source: [PDB-id:chain] 2ogn:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE SB-280080
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.56 ANGSTROMS.
Position (807, 879), (816, 870)
Primary structure ('_': anchors) _GUUGACCA_-_CGCGUUUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		13: C2'-exo, 14: C2'-exo, 18: C2'-exo, 20: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 6 7 ↑
2 7 8 ↑
3 9 10 ↑
4 9 13 →
5 11 12 ↑
6 12 13 ↑
7 13 14 ↑
8 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 3 4 Hoogsteen/O2' cis y
3 4 19 Watson-Crick/Watson-Crick cis
4 5 17 Watson-Crick/Watson-Crick cis y
5 5 18 O2'/Bifurcated ?
6 7 15 Watson-Crick/Watson-Crick cis
7 8 13 Watson-Crick/Watson-Crick cis
8 9 12 Watson-Crick/Watson-Crick cis y
9 10 11 Watson-Crick/Watson-Crick cis
10 15 16 Hoogsteen/Hoogsteen cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters