Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'29-Segment pdb1ond10.i2208-2238
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 (2208, 2238)
Primary structure ('_': anchors) _GUAGAGCGCAAAGGUAGAAGGUGGCUUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C4'-exo, 18: C4'-exo, 29: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 6 7 ↑
2 7 8 ↑
3 11 12 ↑
4 12 13 ↑
5 13 14 ↑
6 14 15 ↑
7 15 16 ↑
8 17 19 →
9 19 21 ↑
10 21 22 ↑
11 24 25 ↑
12 25 26 ↑
13 26 27 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 2 5 Hoogsteen/O2' ?
2 4 17 Bifurcated/O2' ?
3 5 6 Hoogsteen/O2' ?
4 8 15 Watson-Crick/Watson-Crick cis
5 19 20 C/O2' ?
6 20 21 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters