Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-9-Internal Loop pdb1jzy1A.n1378-1534
Source: [PDB-id:chain] 1jzy:A (&rarr PDB)
Source: Information STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA
Source: Compound 23S RRNA
Source: Resolution 3.50 ANGSTROMS.
Position (1380, 1532), (1385, 1522)
Primary structure ('_': anchors) _GGAC_-_CAAGAAAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 6 11 ↓
4 7 8 ↑
5 8 10 ↑
6 12 13 ↑
7 13 14 ↑
8 14 15 ↑
9 15 16 ↑
10 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis y
2 2 16 Watson-Crick/O2' ?
3 3 14 Bifurcated/O2' ?
4 3 15 Hoogsteen/Sugar trans
5 4 13 O2'/Sugar ?
6 4 14 O2'/Bifurcated ?
7 6 7 Watson-Crick/Watson-Crick cis
8 8 9 Hoogsteen/O2' ?
9 8 11 Watson-Crick/Watson-Crick cis
10 10 11 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters