Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb3cf51X.n1330-1525
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 (1338, 1517), (1342, 1510)
Primary structure ('_': anchors) _GGA_-_GUUGAA_
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 4 11 →
4 5 7 →
5 6 7 ↑
6 7 8 ↑
7 11 12 ↑
8 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 11 O2'/Watson-Crick ?
3 2 12 Hoogsteen/Sugar trans
4 3 4 Hoogsteen/Sugar cis y
5 3 10 O2'/Watson-Crick ?
6 3 11 Bifurcated/O2' ?
7 4 11 Watson-Crick/O2' ?
8 5 6 Watson-Crick/Watson-Crick cis
9 5 11 Sugar/O2' ?
10 8 10 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters