Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'26-Segment pdb2o441A.i407-434
Source: [PDB-id:chain] 2o44:A (&rarr PDB)
Source: Information STRUCTURE OF 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH THE MACROLIDE JOSAMYCIN
Source: Compound 23S RRNA
Source: Resolution 3.30 ANGSTROMS.
Position (407, 434)
Primary structure ('_': anchors) _GAUAGCGCAUAGUACCGUGAGGGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 9: C4'-exo, 10: C4'-exo, 12: O4'-endo, 13: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 10 ↓
3 3 28 ↑
4 5 6 ↑
5 8 9 ↑
6 8 13 →
7 15 16 ↑
8 15 25 →
9 18 22 →
10 20 21 ↑
11 22 23 ↑
12 23 24 ↑
13 25 26 ↑
14 26 27 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Sugar/O2' ?
2 2 10 Watson-Crick/Sugar trans
3 3 5 Hoogsteen/O2' ?
4 6 10 O2'/Bifurcated ?
5 7 10 O2'/Bifurcated ?
6 7 11 Watson-Crick/Watson-Crick trans y
7 8 12 O2'/Bifurcated ?
8 9 27 Bifurcated/O2' ?
9 13 24 Watson-Crick/O2' ?
10 14 15 Hoogsteen/Watson-Crick cis y
11 14 24 Watson-Crick/O2' ?
12 14 25 Hoogsteen/Watson-Crick trans y
13 16 23 Watson-Crick/Watson-Crick cis
14 18 20 O2'/Sugar ?
15 18 21 O2'/Bifurcated ?
16 21 22 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters