Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-9-Internal Loop pdb1nkw10.n1786-1799
Source: [PDB-id:chain] 1nkw:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.10 ANGSTROMS.
Position (1776, 1809), (1786, 1799)
Primary structure ('_': anchors) _UCAAGUGGA_-_GAAAUGAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: 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 4 5 ↑
3 5 6 ↑
4 7 8 ↑
5 9 10 ↑
6 9 15 →
7 12 13 ↑
8 15 16 ↑
9 16 17 ↑
10 19 20 ↑
11 20 21 ↑
12 21 22 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 22 Watson-Crick/Watson-Crick cis y
2 4 18 O2'/Bifurcated ?
3 5 18 O2'/Bifurcated ?
4 7 16 Watson-Crick/Watson-Crick cis
5 8 14 Watson-Crick/Watson-Crick cis y
6 8 15 Hoogsteen/Sugar trans
7 9 14 O2'/Watson-Crick ?
8 10 14 O2'/Bifurcated ?
9 11 12 Watson-Crick/Watson-Crick cis
10 18 19 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters