Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb1m1kFA.n1545-1593
Source: [PDB-id:chain] 1m1k:A (&rarr PDB)
Source: Information CO-CRYSTAL STRUCTURE OF AZITHROMYCIN BOUND TO THE 50S RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 23S RRNA
FLIPPED INTERNAL
Source: Resolution 3.20 ANGSTROMS.
Position (1549, 1589), (1554, 1583)
Primary structure ('_': anchors) _CGAAC_-_CAAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 4: C4'-exo, 12: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 3 ↑
2 3 4 ↑
3 4 11 →
4 5 6 ↑
5 6 7 ↑
6 8 9 ↑
7 9 10 ↑
8 10 11 ↑
9 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 3 12 Hoogsteen/Watson-Crick trans
3 5 10 O2'/Bifurcated trans
4 5 11 Bifurcated/O2' ?
5 5 12 Watson-Crick/O2' ?
6 6 9 Watson-Crick/Watson-Crick cis y
7 7 8 Watson-Crick/Watson-Crick cis
8 11 12 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters