Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-4-Internal Loop pdb2vqf1A.n1230-1261
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
Source: Resolution 2.9 ANGSTROMS.
Position (1232, 1259), (1235, 1254)
Primary structure ('_': anchors) _AU_-_UAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 8: C2'-endo, 9: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn, 7: syn, 9: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 7 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 4 Sugar/O2' ?
2 1 10 Watson-Crick/Watson-Crick cis
3 2 6 O2'/Bifurcated ?
4 2 7 Bifurcated/O2' ?
5 4 5 Watson-Crick/Watson-Crick cis
6 5 7 C/O2' ?
7 7 10 Bifurcated/O2' ?
8 9 10 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters