Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb1nkw19.n28-54
Source: [PDB-id:chain] 1nkw:9 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 3.10 ANGSTROMS.
Position (22, 59), (28, 54)
Primary structure ('_': anchors) _GAACC_-_GAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		6: C2'-exo, 12: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 9 &larr
3 4 5 ↑
4 8 9 ↑
5 11 12 ↑
6 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 4 Hoogsteen/O2' ?
3 4 5 Bifurcated/O2' ?
4 5 9 Watson-Crick/Watson-Crick cis y
5 6 9 Watson-Crick/Watson-Crick cis y
6 7 8 Watson-Crick/Watson-Crick cis
7 7 11 Watson-Crick/O2' trans y
8 9 12 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters