Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-3-Internal Loop pdb3cf51X.n1132-1164
Source: [PDB-id:chain] 3cf5:X (&rarr PDB)
Source: Information THIOPEPTIDE ANTIBIOTIC THIOSTREPTON BOUND TO THE LARGE RIBOSOMAL SUBUNIT OF DEINOCOCCUS RADIODURANS
Source: Compound RRNA-23S RIBOSOMAL RNA
Source: Resolution 3.30 ANGSTROMS.
Position (1133, 1163), (1140, 1159)
Primary structure ('_': anchors) _GGAGAA_-_GGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: 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 13 →
3 5 11 &larr
4 6 7 ↑
5 6 12 →
6 7 8 ↑
7 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 12 Bifurcated/O2' ?
3 5 11 Bifurcated/O2' ?
4 5 12 Bifurcated/O2' ?
5 6 10 Bifurcated/O2' ?
6 6 11 Bifurcated/O2' trans y
7 6 13 O2'/Sugar ?
8 7 10 O2'/Bifurcated trans y
9 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters