Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-3-Internal Loop pdb1yj9F0.n934-995
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 (930, 1003), (934, 995)
Primary structure ('_': anchors) _GUUUGAC_-_CGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C2'-endo, 6: C2'-endo, 11: C2'-endo, 12: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 11 →
4 4 12 &larr
5 7 8 ↑
6 8 10 →
7 12 13 ↑
8 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 3 Bifurcated/O2' ?
3 2 13 Watson-Crick/Watson-Crick cis y
4 3 10 Watson-Crick/O2' trans y
5 3 12 O2'/Bifurcated trans y
6 3 13 O2'/Bifurcated ?
7 4 11 Sugar/Hoogsteen trans
8 4 12 O2'/Watson-Crick ?
9 8 11 O2'/Watson-Crick trans
10 9 10 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters