Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb1ondF0.n1154-1186
Source: [PDB-id:chain] 1ond:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE 50S LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH TROLEANDOMYCIN MACROLIDE ANTIBIOTIC
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.40 ANGSTROMS.
Position (1155, 1185), (1162, 1181)
Primary structure ('_': anchors) _GGA_-_GGAGAA_
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 12 →
2 3 4 ↑
3 3 9 &larr
4 4 5 ↑
5 6 7 ↑
6 7 8 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 O2'/Sugar ?
2 1 13 Watson-Crick/Watson-Crick cis
3 2 9 Watson-Crick/O2' ?
4 2 11 Hoogsteen/Watson-Crick trans y
5 2 12 Bifurcated/O2' ?
6 3 8 Sugar/Hoogsteen trans y
7 3 9 Bifurcated/O2' ?
8 4 7 Sugar/Hoogsteen trans
9 4 8 Watson-Crick/O2' ?
10 5 6 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters