Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-7-Internal Loop pdb2e5l1A.n657-693
Source: [PDB-id:chain] 2e5l:A (&rarr PDB)
Source: Information A SNAPSHOT OF THE 30S RIBOSOMAL SUBUNIT CAPTURING MRNA VIA THE SHINE- DALGARNO INTERACTION
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.30 ANGSTROMS.
Position (663, 687), (668, 679)
Primary structure ('_': anchors) _AGUA_-_GCAGAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 5: C4'-exo, 9: C4'-exo, 10: C4'-exo, 11: O4'-endo
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 5 12 →
4 6 8 →
5 12 13 ↑
6 13 14 ↑
7 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 12 O2'/Bifurcated ?
3 3 13 Hoogsteen/Sugar trans y
4 4 12 Hoogsteen/Watson-Crick trans
5 5 8 O2'/Watson-Crick trans y
6 5 11 Sugar/Hoogsteen trans
7 6 7 Watson-Crick/Watson-Crick cis
8 6 12 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters