Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-4-Internal Loop pdb28srFA.n1-28
Source: [PDB-id:chain] 28sr:A (&rarr PDB)
Source: Information NMR STRUCTURE OF THE MOST CONSERVED RNA MOTIF IN SRP RNA
Source: Compound SRP DOMAIN IV
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 4 5 ↑
4 4 11 &larr
5 5 6 ↑
6 7 8 ↑
7 8 9 ↑
8 9 10 ↑
9 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 3 Hoogsteen/O2' ?
2 1 12 Watson-Crick/Watson-Crick cis
3 2 11 Hoogsteen/O2' ?
4 3 4 Bifurcated/O2' ?
5 3 9 O2'/Watson-Crick ?
6 4 8 O2'/Bifurcated ?
7 4 10 Bifurcated/O2' ?
8 4 11 Bifurcated/O2' ?
9 5 8 Watson-Crick/Watson-Crick cis
10 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters