Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb3cf51X.n794-848
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 (799, 843), (804, 837)
Primary structure ('_': anchors) _GUAG_-_CCGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 12: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 10 &larr
2 3 4 ↑
3 4 5 ↑
4 4 11 →
5 5 6 ↑
6 9 10 ↑
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 10 Watson-Crick/O2' ?
3 2 11 O2'/Bifurcated ?
4 3 10 Watson-Crick/O2' ?
5 4 10 O2'/Bifurcated trans
6 5 9 Watson-Crick/Watson-Crick cis
7 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters