Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'15-Hairpin pdb2gyc19.e28-44
Source: [PDB-id:chain] 2gyc:9 (&rarr PDB)
Source: Information STRUCTURE OF THE 50S SUBUNIT OF A SECM-STALLED E. COLI RIBOSOME COMPLEX OBTAINED BY FITTING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS INTO CRYO-EM MAP EMD-1143
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 2.00 ANGSTROMS.
Position (28, 44)
Primary structure ('_': anchors) _ACCCCAUGCCGAACU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 12 &larr
3 4 5 ↑
4 5 6 ↑
5 10 11 ↑
6 13 14 ↑
7 14 15 ↑
8 15 16 ↑
9 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 13 O2'/Bifurcated ?
3 5 6 Bifurcated/O2' ?
4 5 16 O2'/Watson-Crick ?
5 7 14 Watson-Crick/O2' cis y
6 8 11 Bifurcated/O2' ?
7 8 12 O2'/Watson-Crick ?
8 8 13 Bifurcated/O2' trans y
9 9 10 Bifurcated/O2' ?
10 9 11 Bifurcated/O2' ?
11 12 14 Hoogsteen/O2' ?
12 12 15 Bifurcated/O2' ?
13 14 15 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters