Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-4-Internal Loop pdb28spFA.n1-28
Source: [PDB-id:chain] 28sp:A (&rarr PDB)
Source: Information NMR STRUCTURE OF THE MOST CONSERVED RNA MOTIF IN SRP RNA
Source: Compound CONSERVED MOTIF IN SRP RNA
FLIPPED INTERNAL
Source: Resolution NOT APPLICABLE.
Position (5, 24), (10, 19)
Primary structure ('_': anchors) _AGCA_-_CAGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		9: C1'-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 10 →
3 3 11 →
4 4 5 ↑
5 4 11 &larr
6 5 6 ↑
7 7 8 ↑
8 8 9 ↑
9 9 10 ↑
10 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 11 Hoogsteen/O2' ?
3 3 9 O2'/Bifurcated ?
4 4 5 O2'/Watson-Crick ?
5 4 8 O2'/Bifurcated ?
6 4 11 Bifurcated/O2' ?
7 5 8 Watson-Crick/Watson-Crick cis
8 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters