Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'14-Hairpin pdb1j5a1A.e1405-1420
Source: [PDB-id:chain] 1j5a: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 (1405, 1420)
Primary structure ('_': anchors) _AGCUAUGGCUAUGC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		14: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 8 9 ↑
4 9 10 ↑
5 10 11 ↑
6 12 14 →
7 14 15 ↑
8 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 3 14 Watson-Crick/Watson-Crick cis y
3 4 12 Watson-Crick/Bifurcated trans y
4 6 7 O2'/Watson-Crick ?
5 6 10 Bifurcated/O2' ?
6 7 8 Hoogsteen/Hoogsteen cis y
7 7 9 Hoogsteen/O2' ?
8 7 10 Bifurcated/O2' ?
9 11 12 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters