Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-3-Internal Loop pdb2ogoF0.n1351-1546
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
FLIPPED INTERNAL
Source: Resolution 3.66 ANGSTROMS.
Position (1359, 1538), (1363, 1531)
Primary structure ('_': anchors) _GUUGAA_-_GGA_
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 2 3 ↑
3 3 10 →
4 7 8 ↑
5 7 9 →
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 12 Watson-Crick/Sugar trans y
3 3 4 Hoogsteen/O2' ?
4 3 9 Sugar/O2' ?
5 3 12 O2'/Bifurcated ?
6 4 5 C/O2' ?
7 4 10 O2'/Bifurcated ?
8 8 9 Watson-Crick/Watson-Crick cis
9 11 12 Watson-Crick/O2' cis y
10 11 13 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters