Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-3-Internal Loop pdb1yi2F0.n1498-1633
Source: [PDB-id:chain] 1yi2:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF ERYTHROMYCIN BOUND TO THE G2099A MUTANT 50S RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.65 ANGSTROMS.
Position (1500, 1631), (1504, 1621)
Primary structure ('_': anchors) _CCAUGAAAA_-_GAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: C2'-endo, 8: C2'-endo, 9: C2'-endo, 10: C4'-exo, 13: C2'-endo, 14: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 4 5 ↑
5 6 12 ↓
6 7 10 ↑
7 14 15 &larr
8 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 2 15 Bifurcated/O2' trans
3 3 14 O2'/Bifurcated trans
4 4 13 O2'/Bifurcated trans y
5 6 8 Bifurcated/O2' ?
6 6 10 Watson-Crick/Watson-Crick cis
7 11 12 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters