Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb2vhnFB.n700-732
Source: [PDB-id:chain] 2vhn:B (&rarr PDB)
Source: Information STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME. (PART 2 OF 4)
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.74 ANGSTROMS.
Position (702, 730), (707, 724)
Primary structure ('_': anchors) _GGAGG_-_UGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 3: C1'-exo, 5: C1'-exo, 6: C2'-exo, 7: C2'-exo, 8: C2'-exo, 10: C2'-exo, 11: C2'-endo, 13: C2'-exo
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 4 10 →
4 5 6 ↑
5 5 11 &larr
6 8 9 ↑
7 9 10 ↑
8 11 12 ↑
9 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 3 12 Watson-Crick/Watson-Crick cis
3 4 11 Hoogsteen/Sugar trans y
4 5 10 Bifurcated/O2' trans
5 5 11 O2'/Bifurcated ?
6 6 9 O2'/Bifurcated trans y
7 6 10 Bifurcated/O2' ?
8 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters