Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb1yl4FA.n407-418
Source: [PDB-id:chain] 1yl4:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF 70S RIBOSOME WITH THRS OPERATOR AND TRNAS. 30S SUBUNIT. THE COORDINATES FOR THE 50S SUBUNIT ARE IN THE PDB ENTRY 1YL3
Source: Compound 16S RRNA
FLIPPED INTERNAL
Source: Resolution 5.50 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 5: C4'-exo, 6: C2'-exo, 11: C4'-exo, 12: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 4 6 →
3 8 9 ↑
4 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 Watson-Crick/O2' ?
3 4 10 Watson-Crick/Hoogsteen trans
4 4 13 Hoogsteen/Watson-Crick trans y
5 5 14 Watson-Crick/Watson-Crick trans y
6 6 10 Bifurcated/O2' ?
7 6 11 O2'/Bifurcated ?
8 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters