Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2ogo10.n1785-1798
Source: [PDB-id:chain] 2ogo:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE RETAPAMULIN (SB-275833)
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.66 ANGSTROMS.
Position (1776, 1807), (1785, 1798)
Primary structure ('_': anchors) _CAAGUGGA_-_GAAAUGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C2'-exo, 13: C2'-exo, 17: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		17: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 5 6 ↑
3 6 7 ↑
4 8 9 ↑
5 8 14 →
6 12 13 ↑
7 14 15 ↑
8 15 16 ↑
9 18 19 ↑
10 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis y
2 2 18 O2'/Bifurcated trans y
3 6 15 Watson-Crick/Watson-Crick cis
4 7 14 Bifurcated/O2' trans y
5 8 13 O2'/Bifurcated ?
6 9 13 O2'/Watson-Crick ?
7 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters