Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2ogoF0.n800-884
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
FLIPPED INTERNAL
Source: Resolution 3.66 ANGSTROMS.
Position (806, 878), (815, 869)
Primary structure ('_': anchors) _CGCGUUUA_-_GUUGACCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: C2'-exo, 20: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 4 5 ↑
3 6 7 ↑
4 7 8 ↑
5 8 9 ↑
6 8 12 →
7 9 10 ↑
8 11 12 ↑
9 13 14 ↑
10 14 15 ↑
11 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 2 16 O2'/Sugar ?
3 2 17 Watson-Crick/Watson-Crick cis
4 5 6 Hoogsteen/Hoogsteen cis y
5 6 14 Watson-Crick/Watson-Crick cis
6 8 13 Watson-Crick/Watson-Crick cis
7 9 12 Watson-Crick/Watson-Crick cis y
8 10 11 Watson-Crick/Watson-Crick cis
9 17 18 Hoogsteen/O2' cis y
10 18 19 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters