Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'27-Segment pdb2ogo10.i560-588
Source: [PDB-id:chain] 2ogo:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE RETAPAMULIN (SB-275833)
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.66 ANGSTROMS.
Position (560, 588)
Primary structure ('_': anchors) _GAGCUUAAGUUGAAAAACGGAGGCGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 17: C4'-exo, 18: C2'-exo, 21: C2'-exo, 26: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		13: syn, 22: syn, 25: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 3 26 →
4 4 5 ↑
5 6 21 →
6 7 8 ↑
7 7 22 ↓
8 8 9 ↑
9 9 10 ↑
10 10 11 ↑
11 17 18 ↑
12 19 20 ↑
13 22 23 →
14 23 24 ↑
15 26 27 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 4 25 Watson-Crick/Watson-Crick cis
2 7 20 Watson-Crick/O2' ?
3 8 20 O2'/Bifurcated trans
4 10 18 Bifurcated/Watson-Crick cis y
5 11 18 Watson-Crick/Watson-Crick cis y
6 12 16 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters