Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb1y69F0.n819-867
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 (820, 866), (826, 859)
Primary structure ('_': anchors) _CCGAAG_-_UGUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 8: C4'-exo, 11: C2'-exo, 12: C4'-exo, 14: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 4 11 →
3 5 6 ↑
4 5 13 &larr
5 9 10 ↑
6 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 4 13 O2'/Bifurcated ?
3 5 11 Sugar/Watson-Crick trans y
4 5 12 Watson-Crick/O2' ?
5 6 10 Watson-Crick/Watson-Crick cis
6 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters