Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-3-Internal Loop pdb1ond10.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
Source: Resolution 3.40 ANGSTROMS.
Position (1155, 1185), (1162, 1181)
Primary structure ('_': anchors) _GGAGAA_-_GGA_
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 2 13 →
2 5 11 &larr
3 6 7 ↑
4 7 8 ↑
5 9 10 ↑
6 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 12 Bifurcated/O2' ?
3 3 12 Hoogsteen/Watson-Crick trans y
4 5 11 Bifurcated/O2' ?
5 5 12 Watson-Crick/O2' ?
6 6 10 Watson-Crick/O2' ?
7 6 11 Sugar/Hoogsteen trans y
8 6 13 O2'/Sugar ?
9 7 10 Sugar/Hoogsteen trans
10 8 9 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters