Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'18-Segment pdb1sm110.i519-538
Source: [PDB-id:chain] 1sm1:0 (&rarr PDB)
Source: Information COMPLEX OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS WITH QUINUPRISTIN AND DALFOPRISTIN
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.42 ANGSTROMS.
Position (519, 538)
Primary structure ('_': anchors) _GUGCCUAUUGAAGCAUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 13 ↑
3 4 5 ↑
4 5 6 ↑
5 6 7 ↑
6 7 8 ↑
7 8 9 ↑
8 12 16 ↑
9 16 17 ↑
10 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 5 14 O2'/Bifurcated ?
2 5 18 Watson-Crick/Watson-Crick cis
3 6 14 O2'/Bifurcated ?
4 6 17 Watson-Crick/Watson-Crick cis
5 7 16 Watson-Crick/Watson-Crick cis
6 9 11 O2'/Watson-Crick ?
7 12 14 Hoogsteen/Bifurcated cis y
8 14 16 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters