Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb2qnhFy.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
FLIPPED INTERNAL
Source: Resolution 3.83 ANGSTROMS.
Position (1409, 1442), (1415, 1437)
Primary structure ('_': anchors) _CCGA_-_GAAGU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-exo, 7: C2'-exo, 12: C4'-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 →
3 3 12 &larr
4 5 6 ↑
5 7 8 ↑
6 8 9 ↑
7 9 10 ↑
8 10 11 ↑
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 12 Bifurcated/O2' trans y
3 3 10 Sugar/Hoogsteen trans
4 4 9 Watson-Crick/Watson-Crick cis
5 5 8 Watson-Crick/Watson-Crick cis
6 6 7 Watson-Crick/Watson-Crick cis
7 11 12 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters