Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb1y6910.n1352-1547
Source: [PDB-id:chain] 1y69:0 (&rarr PDB)
Source: Information RRF DOMAIN I IN COMPLEX WITH THE 50S RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.33 ANGSTROMS.
Position (1360, 1539), (1364, 1532)
Primary structure ('_': anchors) _GGA_-_GUUGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 5 7 →
3 6 7 ↑
4 11 12 ↑
5 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 3 Bifurcated/O2' ?
2 1 13 Watson-Crick/Watson-Crick cis
3 2 3 Sugar/O2' ?
4 2 11 O2'/Watson-Crick ?
5 2 12 Watson-Crick/Sugar trans y
6 4 11 Watson-Crick/O2' ?
7 5 6 Watson-Crick/Watson-Crick cis
8 5 11 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters