Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'1-3-Internal Loop pdb1m5l1A.n9-32
Source: [PDB-id:chain] 1m5l:A (&rarr PDB)
Source: Information STRUCTURE OF WILD-TYPE AND MUTANT INTERNAL LOOPS FROM THE SL-1 DOMAIN OF THE HIV-1 PACKAGING SIGNAL
Source: Compound MODIFIED HIV-1 PACKAGING SIGNAL STEM-LOOP 1 RNA
Source: Resolution NOT APPLICABLE.
Position (12, 29), (14, 25)
Primary structure ('_': anchors) _G_-_GGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C1'-endo, 6: C2'-endo, 7: C2'-endo, 8: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 4 5 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 Watson-Crick/Watson-Crick cis
2 2 5 Sugar/Hoogsteen trans y
3 2 7 Watson-Crick/Watson-Crick cis
4 3 4 Watson-Crick/Watson-Crick cis
5 3 5 Bifurcated/Watson-Crick cis y
6 5 7 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters