Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb1k8a1A.n938-992
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 (946, 984), (951, 978)
Primary structure ('_': anchors) _GUAG_-_CCAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-endo, 2: C2'-endo, 6: C2'-exo, 7: C2'-endo
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 3 Hoogsteen/Sugar cis y
3 2 10 Bifurcated/O2' ?
4 3 11 Hoogsteen/Watson-Crick trans
5 4 10 O2'/Bifurcated trans y
6 5 9 Watson-Crick/Watson-Crick cis
7 6 7 Watson-Crick/Watson-Crick cis
8 7 8 Hoogsteen/Bifurcated cis
9 12 13 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters