Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-4-Internal Loop pdb1yj9F0.n2634-2668
Source: [PDB-id:chain] 1yj9:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE MUTANT 50S RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI CONTAINING A THREE RESIDUE DELETION IN L22
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.90 ANGSTROMS.
Position (2636, 2666), (2641, 2661)
Primary structure ('_': anchors) _GAAA_-_GUAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 4 ↑
3 4 9 →
4 5 6 ↑
5 7 8 ↑
6 8 9 ↑
7 10 11 ↑
8 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 11 Watson-Crick/Watson-Crick cis
3 4 10 Hoogsteen/Watson-Crick trans
4 5 8 O2'/Bifurcated trans
5 5 9 Bifurcated/O2' ?
6 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters