Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'13-Hairpin pdb2zjr1X.e2546-2560
Source: [PDB-id:chain] 2zjr:X (&rarr PDB)
Source: Information REFINED NATIVE STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT (50S) FROM DEINOCOCCUS RADIODURANS
Source: Compound RIBOSOMAL 23S RNA
Source: Resolution 2.91 ANGSTROMS.
Position (2546, 2560)
Primary structure ('_': anchors) _UGAAAGCAUCUAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-exo, 6: C4'-exo, 12: C4'-exo, 14: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 10 &larr
4 4 5 ↑
5 4 13 →
6 8 9 ↑
7 9 10 ↑
8 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 2 12 Hoogsteen/Watson-Crick trans
3 2 14 Watson-Crick/Watson-Crick trans y
4 3 12 O2'/Bifurcated ?
5 4 10 Watson-Crick/Hoogsteen trans
6 5 9 Watson-Crick/Hoogsteen trans
7 6 8 Bifurcated/O2' ?
8 12 14 Hoogsteen/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters