Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb2qnh1y.n1397-1454
Source: [PDB-id:chain] 2qnh:y (&rarr PDB)
Source: Information INTERACTIONS AND DYNAMICS OF THE SHINE-DALGARNO HELIX IN THE 70S RIBOSOME. THIS FILE, 2QNH, CONTAINS THE 30S RIBOSOME SUBUNIT, TWO TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1VSP.
Source: Compound 16S RNA
Source: Resolution 3.83 ANGSTROMS.
Position (1409, 1442), (1415, 1437)
Primary structure ('_': anchors) _GAAGU_-_CCGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 7: C2'-exo, 12: C2'-exo, 13: C2'-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 11 &larr
3 3 4 ↑
4 3 12 →
5 4 5 ↑
6 5 6 ↑
7 6 7 ↑
8 8 9 ↑
9 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/O2' ?
3 2 12 Bifurcated/O2' trans y
4 4 11 Sugar/Hoogsteen trans
5 5 10 Watson-Crick/Watson-Crick cis
6 6 9 Watson-Crick/Watson-Crick cis
7 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters