Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-7-Internal Loop pdb1y6919.n69-106
Source: [PDB-id:chain] 1y69:9 (&rarr PDB)
Source: Information RRF DOMAIN I IN COMPLEX WITH THE 50S RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 3.33 ANGSTROMS.
Position (70, 105), (78, 97)
Primary structure ('_': anchors) _AAUGAUA_-_AAAAGUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 5 6 ↑
3 6 7 ↑
4 8 9 ↑
5 8 12 →
6 14 15 ↑
7 15 16 ↑
8 17 18 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 18 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/O2' ?
3 2 17 Hoogsteen/Sugar trans y
4 5 15 Watson-Crick/Watson-Crick cis y
5 6 14 Watson-Crick/Watson-Crick cis y
6 7 13 Watson-Crick/Watson-Crick trans y
7 8 11 O2'/Bifurcated ?
8 9 10 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters