Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb2ogn10.n214-237
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 (215, 236), (222, 230)
Primary structure ('_': anchors) _UUAGUA_-_GAACC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 5: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 &larr
4 4 6 →
5 5 10 &larr
6 7 8 ↑
7 7 11 →
8 9 10 ↑
9 11 12 ↑
10 13 14 ↑
11 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 13 Bifurcated/O2' ?
3 4 12 Hoogsteen/Hoogsteen trans
4 5 6 Hoogsteen/Sugar cis y
5 5 10 Watson-Crick/O2' ?
6 5 11 O2'/Bifurcated ?
7 6 11 Hoogsteen/Watson-Crick trans
8 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters