Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-5-Internal Loop pdb2vhnFB.n1464-1495
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 (1458, 1501), (1464, 1495)
Primary structure ('_': anchors) _CUGAG_-_GUAGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 3: C4'-exo, 6: C2'-exo, 9: C2'-exo, 10: C2'-exo, 12: C2'-exo, 13: C2'-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 3 ↑
3 2 12 →
4 3 11 →
5 4 5 ↑
6 4 10 →
7 5 6 ↑
8 6 7 ↑
9 8 9 ↑
10 9 10 ↑
11 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 3 12 Hoogsteen/Watson-Crick trans
3 4 11 O2'/Bifurcated trans y
4 4 12 Watson-Crick/O2' ?
5 5 10 Watson-Crick/Watson-Crick cis y
6 7 8 Watson-Crick/Watson-Crick cis
7 10 11 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters