Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-Internal Loop pdb1ooa1C.n4-26
Source: [PDB-id:chain] 1ooa:C (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF NF-KB(P50)2 COMPLEXED TO A HIGH- AFFINITY RNA APTAMER
Source: Compound RNA APTAMER
Source: Resolution 2.45 ANGSTROMS.
Position (5, 25), (10, 21)
Primary structure ('_': anchors) _UUGA_-_GGC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C4'-exo
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 4 9 &larr
4 5 6 ↑
5 7 8 ↑
6 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 11 Watson-Crick/Watson-Crick cis
2 2 10 Hoogsteen/Watson-Crick trans y
3 5 8 Sugar/Hoogsteen trans
4 6 7 Watson-Crick/Watson-Crick cis
5 8 9 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters