Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2ogo10.n800-884
Source: [PDB-id:chain] 2ogo:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE RETAPAMULIN (SB-275833)
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.66 ANGSTROMS.
Position (806, 878), (815, 869)
Primary structure ('_': anchors) _GUUGACCA_-_CGCGUUUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 14: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 6 7 ↑
3 7 8 ↑
4 9 10 ↑
5 9 13 →
6 11 12 ↑
7 12 13 ↑
8 13 14 ↑
9 14 15 ↑
10 16 17 ↑
11 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 2 3 Watson-Crick/O2' ?
3 3 4 Hoogsteen/O2' cis y
4 4 19 Watson-Crick/Watson-Crick cis
5 5 19 O2'/Sugar ?
6 7 15 Watson-Crick/Watson-Crick cis
7 8 13 Watson-Crick/Watson-Crick cis
8 9 12 Watson-Crick/Watson-Crick cis y
9 10 11 Watson-Crick/Watson-Crick cis
10 15 16 Hoogsteen/Hoogsteen cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters