Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-4-Internal Loop pdb2qnh1y.n867-878
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 (860, 883), (867, 878)
Primary structure ('_': anchors) _GAGUAC_-_GAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 3: C3'-exo, 4: C3'-exo, 6: C2'-exo, 7: C2'-exo, 8: C2'-exo, 9: C2'-exo, 11: 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 3 &larr
3 5 6 ↑
4 6 7 ↑
5 11 12 ↑
6 12 13 ↑
7 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 13 Hoogsteen/Sugar trans
3 3 12 O2'/Bifurcated trans y
4 4 10 Watson-Crick/O2' ?
5 4 11 O2'/Bifurcated ?
6 5 10 Watson-Crick/O2' ?
7 5 11 Hoogsteen/Watson-Crick trans
8 6 10 Bifurcated/O2' trans
9 8 9 Watson-Crick/Watson-Crick cis y
10 13 14 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters