Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'15-Hairpin pdb2j011A.e1628-1644
Source: [PDB-id:chain] 2j01:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FROM MOLECULE I.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 2.80 ANGSTROMS.
Position (1628, 1644)
Primary structure ('_': anchors) _GUAACUUCGGGAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C2'-endo, 9: C4'-exo, 12: C2'-exo, 13: C1'-exo, 14: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		9: syn, 10: syn, 13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 5 ↑
4 4 15 →
5 5 6 ↑
6 6 7 ↑
7 7 9 ↑
8 10 11 →
9 11 12 ↑
10 12 13 ↑
11 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 2 15 O2'/Bifurcated ?
3 2 16 Bifurcated/O2' trans
4 3 15 Hoogsteen/O2' ?
5 4 13 Bifurcated/O2' ?
6 5 12 O2'/Bifurcated trans
7 6 11 Watson-Crick/Watson-Crick cis
8 7 10 Watson-Crick/Bifurcated trans
9 9 10 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters