Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'1-4-Internal Loop pdb1f1t1A.n7-29
Source: [PDB-id:chain] 1f1t:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE MALACHITE GREEN APTAMER COMPLEXED WITH TETRAMETHYL-ROSAMINE
Source: Compound MALACHITE GREEN APTAMER RNA
Source: Resolution 2.80 ANGSTROMS.
Position (8, 28), (10, 23)
Primary structure ('_': anchors) _A_-_GUAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C1'-exo, 5: C1'-exo, 6: 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 3 Bifurcated/O2' ?
2 1 9 Watson-Crick/Watson-Crick cis
3 3 4 Watson-Crick/Watson-Crick cis
4 4 8 Watson-Crick/Sugar trans
5 4 9 Bifurcated/O2' ?
6 6 8 O2'/Watson-Crick ?
7 6 9 O2'/Watson-Crick ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters