Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-1-Internal Loop pdb1f6uFB.n1-19
Source: [PDB-id:chain] 1f6u:B (&rarr PDB)
Source: Information NMR STRUCTURE OF THE HIV-1 NUCLEOCAPSID PROTEIN BOUND TO STEM-LOOP SL2 OF THE PSI-RNA PACKAGING SIGNAL. IMPLICATIONS FOR GENOME RECOGNITION
Source: Compound HIV-1 STEM-LOOP SL2 FROM PSI-RNA PACKAGING
FLIPPED INTERNAL
Source: Resolution NOT APPLICABLE.
Position (4, 16), (6, 13)
Primary structure ('_': anchors) _UA_-_A_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: O4'-exo, 2: C2'-exo, 3: C4'-endo, 4: C4'-exo, 5: C2'-exo, 6: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 5 6 ↑
3 6 7 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 3 Bifurcated/O2' ?
2 1 7 Watson-Crick/Watson-Crick cis
3 2 3 Hoogsteen/Sugar cis y
4 2 6 Watson-Crick/Watson-Crick cis y
5 3 6 Watson-Crick/Watson-Crick trans y
6 4 5 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters