Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb1y69F0.n801-885
Source: [PDB-id:chain] 1y69:0 (&rarr PDB)
Source: Information RRF DOMAIN I IN COMPLEX WITH THE 50S RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.33 ANGSTROMS.
Position (806, 880), (816, 870)
Primary structure ('_': anchors) _CGCGUUUAG_-_UGUUGACCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: 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 9 13 →
4 10 11 ↑
5 12 13 ↑
6 14 15 ↑
7 15 16 ↑
8 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 22 Watson-Crick/Watson-Crick cis
2 3 17 O2'/Sugar ?
3 6 8 Bifurcated/Hoogsteen cis y
4 7 15 Watson-Crick/Watson-Crick cis
5 8 9 Watson-Crick/Sugar cis y
6 9 14 Watson-Crick/Watson-Crick cis
7 10 13 Watson-Crick/Watson-Crick cis y
8 11 12 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters