Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-9-Internal Loop pdb1y6910.n1729-1739
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
Source: Resolution 3.33 ANGSTROMS.
Position (1721, 1749), (1729, 1739)
Primary structure ('_': anchors) _CUGCCAA_-_GACGUAUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		11: C2'-exo, 12: C4'-exo, 14: C2'-exo, 16: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 7 8 ↑
3 8 9 ↑
4 10 11 ↑
5 12 14 →
6 14 15 ↑
7 18 19 ↑
8 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 3 7 Sugar/O2' cis y
3 3 18 Watson-Crick/Watson-Crick cis
4 4 16 O2'/Bifurcated ?
5 7 12 Bifurcated/O2' ?
6 8 11 O2'/Bifurcated trans
7 8 19 O2'/Watson-Crick trans
8 9 10 Watson-Crick/Watson-Crick cis
9 16 18 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters