Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb1fmnFA.n14-23
Source: [PDB-id:chain] 1fmn:A (&rarr PDB)
Source: Information SOLUTION STRUCTURE OF FMN-RNA APTAMER COMPLEX, NMR, 5 STRUCTURES
Source: Compound RNA (5'-R(*GP*GP*CP*GP*UP*GP*UP*AP*GP*GP
FLIPPED INTERNAL
Source: Resolution NOT APPLICABLE.
Position (7, 29), (14, 23)
Primary structure ('_': anchors) _GAAGG_-_AGGAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-exo, 6: C2'-exo, 7: C4'-exo, 8: C2'-exo, 9: C4'-exo, 13: C4'-exo, 14: C4'-exo, 15: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 1 14 →
3 2 3 ↑
4 3 4 ↑
5 4 5 ↑
6 5 9 →
7 6 7 ↑
8 6 12 &larr
9 8 9 ↑
10 13 14 ↑
11 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 14 Watson-Crick/Watson-Crick cis
3 3 13 Watson-Crick/Watson-Crick cis y
4 5 10 Hoogsteen/Watson-Crick trans
5 5 12 O2'/Watson-Crick ?
6 6 9 Sugar/Hoogsteen trans
7 7 8 Watson-Crick/Watson-Crick cis
8 10 12 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters