Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-9-Internal Loop pdb3bbx1B.n1486-1642
Source: [PDB-id:chain] 3bbx:B (&rarr PDB)
Source: Information THE HSP15 PROTEIN FITTED INTO THE LOW RESOLUTION CRYO-EM MAP OF THE 50S.NC-TRNA.HSP15 COMPLEX
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 0.00 ANGSTROMS.
Position (1489, 1639), (1494, 1629)
Primary structure ('_': anchors) _GGAC_-_CAGGAAAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C2'-endo, 8: C2'-endo, 9: C2'-endo, 10: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 &larr
4 6 11 ↓
5 7 8 ↑
6 8 10 ↑
7 12 13 ↑
8 13 14 ↑
9 14 15 ↑
10 15 16 ↑
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 16 Hoogsteen/Bifurcated trans y
3 3 15 Bifurcated/O2' trans
4 4 14 O2'/Bifurcated trans
5 5 13 O2'/Bifurcated trans y
6 6 7 Watson-Crick/Watson-Crick cis
7 8 10 Hoogsteen/O2' ?
8 8 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters