Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2ow8Fy.n397-427
Source: [PDB-id:chain] 2ow8:y (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A 70S RIBOSOME-TRNA COMPLEX REVEALS FUNCTIONAL INTERACTIONS AND REARRANGEMENTS. THIS FILE, 2OW8, CONTAINS THE 30S RIBOSOME SUBUNIT, TWO TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1VSA.
Source: Compound 16S SMALL SUBUNIT RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.71 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-endo, 6: O4'-endo, 9: C2'-exo, 11: C3'-exo, 12: C4'-exo, 13: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 5 13 →
5 8 9 ↑
6 9 10 ↑
7 11 13 ↑
8 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 2 14 Hoogsteen/Sugar trans y
3 3 14 O2'/Bifurcated ?
4 4 10 Watson-Crick/Hoogsteen trans y
5 4 13 Hoogsteen/Watson-Crick trans y
6 6 10 Bifurcated/O2' ?
7 6 11 Bifurcated/O2' trans
8 7 8 Watson-Crick/Watson-Crick cis y
9 11 12 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters