Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-9-Internal Loop pdb2zjr1X.n1344-1502
Source: [PDB-id:chain] 2zjr:X (&rarr PDB)
Source: Information REFINED NATIVE STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT (50S) FROM DEINOCOCCUS RADIODURANS
Source: Compound RIBOSOMAL 23S RNA
Source: Resolution 2.91 ANGSTROMS.
Position (1347, 1499), (1352, 1489)
Primary structure ('_': anchors) _GGAC_-_CAAGAAAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-exo, 8: O4'-endo, 9: C4'-exo, 10: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 &larr
4 6 11 ↓
5 8 10 ↑
6 12 13 ↑
7 13 14 ↑
8 14 15 ↑
9 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 3 15 Bifurcated/O2' trans
3 4 13 O2'/Sugar ?
4 4 14 O2'/Bifurcated ?
5 5 13 O2'/Bifurcated ?
6 6 7 Watson-Crick/Watson-Crick cis
7 8 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters