Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-7-Internal Loop pdb1ond10.n1728-1738
Source: [PDB-id:chain] 1ond:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTIC
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.40 ANGSTROMS.
Position (1722, 1746), (1728, 1738)
Primary structure ('_': anchors) _GCCAA_-_GACGUAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		10: C4'-exo, 14: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 6 7 ↑
3 8 9 ↑
4 14 16 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Sugar/O2' cis y
2 1 16 Watson-Crick/Watson-Crick cis
3 3 13 Sugar/Bifurcated trans y
4 4 10 Bifurcated/O2' ?
5 5 9 Watson-Crick/O2' ?
6 6 9 O2'/Bifurcated trans
7 7 8 Watson-Crick/Watson-Crick cis
8 14 16 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters