Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2ogmF0.n222-230
Source: [PDB-id:chain] 2ogm:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE SB-571519
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.50 ANGSTROMS.
Position (215, 236), (222, 230)
Primary structure ('_': anchors) _GAACC_-_UUAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		6: C2'-exo, 12: C4'-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 3 ↑
3 3 4 ↑
4 4 5 ↑
5 5 9 →
6 6 7 ↑
7 6 11 &larr
8 8 9 ↑
9 9 10 ↑
10 10 12 →
11 12 13 &larr
12 13 14 ↑
13 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 13 Bifurcated/O2' ?
3 4 12 O2'/Bifurcated ?
4 5 10 Hoogsteen/Watson-Crick trans
5 5 11 O2'/Bifurcated ?
6 6 10 Bifurcated/O2' ?
7 6 11 Bifurcated/O2' ?
8 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters