Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-5-Internal Loop pdb1k8a1A.n1424-1459
Source: [PDB-id:chain] 1k8a:A (&rarr PDB)
Source: Information CO-CRYSTAL STRUCTURE OF CARBOMYCIN A BOUND TO THE 50S RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 23S RRNA
Source: Resolution 3.00 ANGSTROMS.
Position (1425, 1458), (1429, 1452)
Primary structure ('_': anchors) _UAA_-_GAAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C2'-endo, 9: C2'-endo, 11: C2'-endo, 12: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 3 8 →
4 4 5 ↑
5 6 7 ↑
6 8 12 ↑
7 10 11 &larr
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 8 Hoogsteen/Watson-Crick trans
3 3 7 Watson-Crick/O2' ?
4 4 5 Hoogsteen/O2' ?
5 4 7 O2'/Bifurcated trans
6 5 6 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters