Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'29-Segment pdb2ogm10.i2209-2239
Source: [PDB-id:chain] 2ogm:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE SB-571519
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.50 ANGSTROMS.
Position (2209, 2239)
Primary structure ('_': anchors) _GUAGAGCGCAAAGGUAGAAGGUGGCUUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C4'-exo, 18: C4'-exo, 19: C4'-exo, 28: C4'-exo, 29: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn, 20: syn, 29: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 17 ↓
2 6 7 ↑
3 7 8 ↑
4 9 10 ↑
5 11 12 ↑
6 12 13 ↑
7 13 14 ↑
8 14 15 ↑
9 15 16 ↑
10 17 19 →
11 19 21 ↑
12 21 22 ↑
13 22 23 ↑
14 24 25 ↑
15 25 26 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 4 6 Hoogsteen/O2' ?
2 4 17 Bifurcated/O2' ?
3 6 17 Hoogsteen/Watson-Crick trans y
4 8 15 Watson-Crick/Watson-Crick cis
5 16 20 Bifurcated/O2' ?
6 19 20 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters