Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'1-4-Internal Loop pdb1q8n1A.n7-29
Source: [PDB-id:chain] 1q8n:A (&rarr PDB)
Source: Information SOLUTION STRUCTURE OF THE MALACHITE GREEN RNA BINDING APTAMER
Source: Compound RNA APTAMER
Source: Resolution NOT APPLICABLE.
Position (8, 28), (10, 23)
Primary structure ('_': anchors) _A_-_GUAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C1'-exo, 2: C2'-endo, 3: O4'-endo, 5: C4'-exo, 6: C2'-exo, 7: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 3 ↑
2 7 8 ↑
3 8 9 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 9 Watson-Crick/Watson-Crick cis
2 3 4 Watson-Crick/Watson-Crick cis
3 4 8 Watson-Crick/Sugar trans
4 5 6 Hoogsteen/O2' ?
5 6 8 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters