Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb2vqeFA.n134-168
Source: [PDB-id:chain] 2vqe: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 2.5 ANGSTROMS.
Position (138, 164), (143, 158)
Primary structure ('_': anchors) _CUAAU_-_ACAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 3 ↑
2 3 4 ↑
3 5 6 ↑
4 6 7 ↑
5 8 9 ↑
6 9 10 ↑
7 11 12 ↑
8 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 Bifurcated/O2' ?
2 1 13 Watson-Crick/Watson-Crick cis
3 3 12 Hoogsteen/Watson-Crick trans
4 4 11 Hoogsteen/Watson-Crick trans
5 5 10 Watson-Crick/Hoogsteen trans
6 6 9 Watson-Crick/Hoogsteen trans
7 7 8 Watson-Crick/Watson-Crick cis
8 8 9 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters