Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2zjp1X.n1753-1788
Source: [PDB-id:chain] 2zjp:X (&rarr PDB)
Source: Information THIOPEPTIDE ANTIBIOTIC NOSIHEPTIDE BOUND TO THE LARGE RIBOSOMAL SUBUNIT OF DEINOCOCCUS RADIODURANS
Source: Compound RIBOSOMAL 23S RNA
Source: Resolution 3.70 ANGSTROMS.
Position (1755, 1786), (1764, 1777)
Primary structure ('_': anchors) _CAAGUGGA_-_GAAAUGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: C2'-exo, 11: C4'-exo, 12: C2'-exo, 13: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		17: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 3 18 →
4 4 5 ↑
5 5 6 ↑
6 6 7 ↑
7 7 8 ↑
8 9 10 ↑
9 9 13 →
10 11 12 ↑
11 13 14 ↑
12 14 15 ↑
13 15 16 ↑
14 16 17 &larr
15 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis y
2 4 17 O2'/Bifurcated ?
3 6 15 Watson-Crick/Watson-Crick cis
4 7 14 Hoogsteen/Sugar trans
5 8 9 C/O2' ?
6 9 12 Sugar/Hoogsteen trans
7 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters