Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-2-Internal Loop pdb1vsp1w.n2337-2360
Source: [PDB-id:chain] 1vsp:w (&rarr PDB)
Source: Information INTERACTIONS AND DYNAMICS OF THE SHINE-DALGARNO HELIX IN THE 70S RIBOSOME. THIS FILE, 1VSP, CONTAINS THE 50S RIBOSOME SUBUNIT. 30S RIBOSOME SUBUNIT IS IN THE FILE 2QNH
Source: Compound 23S LARGE SUBUNIT RIBOSOMAL RNA
Source: Resolution 3.83 ANGSTROMS.
Position (2340, 2357), (2343, 2354)
Primary structure ('_': anchors) _GA_-_GA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 6: C2'-exo, 8: 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 6 &larr
3 3 4 ↑
4 3 7 →
5 4 6 →
6 5 6 ↑
7 7 8 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/O2' ?
3 2 7 Bifurcated/O2' trans
4 3 4 Hoogsteen/O2' ?
5 3 6 Bifurcated/O2' trans y
6 4 5 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters