Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'12-Hairpin pdb1xmq1A.e311-324
Source: [PDB-id:chain] 1xmq:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF T6A37-ASLLYSUUU AAA-MRNA BOUND TO THE DECODING CENTER
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.00 ANGSTROMS.
Position (311, 324)
Primary structure ('_': anchors) _ACUGAGACACGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-exo, 8: C2'-endo, 9: C2'-endo, 10: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		8: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 2 14 →
4 3 4 ↑
5 4 5 ↑
6 6 7 ↑
7 8 10 ↑
8 10 13 ↑
9 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 9 O2'/Hoogsteen ?
3 2 10 O2'/Bifurcated ?
4 2 13 Watson-Crick/Watson-Crick cis
5 3 9 Bifurcated/O2' ?
6 3 10 Hoogsteen/Watson-Crick trans
7 4 8 Hoogsteen/Watson-Crick trans
8 5 7 Hoogsteen/O2' ?
9 5 8 O2'/Watson-Crick ?
10 10 13 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters