Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'10-Hairpin pdb1ddy1A.e9-20
Source: [PDB-id:chain] 1ddy:A (&rarr PDB)
Source: Information MOLECULAR RECOGNITION BY THE VITAMIN B12 RNA APTAMER
Source: Compound VITAMIN B12 BINDING RNA
Source: Resolution 3.00 ANGSTROMS.
Position (9, 20)
Primary structure ('_': anchors) _GCGCAUAACC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 6: C2'-endo, 7: C1'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 7 &larr
2 3 7 →
3 4 5 ↑
4 5 6 &larr
5 8 9 ↑
6 9 10 ↑
7 10 11 ↑
8 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters