Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-4-Internal Loop pdb2j28F8.n26-49
Source: [PDB-id:chain] 2j28:8 (&rarr PDB)
Source: Information MODEL OF E. COLI SRP BOUND TO 70S RNCS
Source: Compound 4.5S SIGNAL RECOGNITION PARTICLE RNA
FLIPPED INTERNAL
Source: Resolution 8.00 ANGSTROMS.
Position (28, 47), (33, 42)
Primary structure ('_': anchors) _AGCA_-_CAGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 2 10 →
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 Bifurcated/O2' trans y
3 3 10 Watson-Crick/Hoogsteen trans
4 3 11 O2'/Bifurcated ?
5 4 9 Sugar/Hoogsteen trans y
6 4 10 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