Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-4-Internal Loop pdb2vqfFA.n360-383
Source: [PDB-id:chain] 2vqf:A (&rarr PDB)
Source: Information MODIFIED URIDINES WITH C5-METHYLENE SUBSTITUENTS AT THE FIRST POSITION OF THE TRNA ANTICODON STABILIZE U-G WOBBLE PAIRING DURING DECODING
Source: Compound 16S RRNA
FLIPPED INTERNAL
Source: Resolution 2.9 ANGSTROMS.
Position (362, 381), (367, 378)
Primary structure ('_': anchors) _GA_-_CAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 9: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 5 →
3 6 7 ↑
4 7 8 ↑
5 9 10 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 7 O2'/Watson-Crick ?
2 1 10 Watson-Crick/Watson-Crick cis
3 2 6 Watson-Crick/Watson-Crick cis
4 2 9 Hoogsteen/Watson-Crick trans
5 3 9 O2'/Bifurcated ?
6 4 5 Watson-Crick/Watson-Crick cis
7 8 10 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters