Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-7-Internal Loop pdb1yl31A.n1813-1822
Source: [PDB-id:chain] 1yl3:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF 70S RIBOSOME WITH THRS OPERATOR AND TRNAS. LARGE SUBUNIT. THE COORDINATES FOR THE SMALL SUBUNIT ARE IN THE PDB ENTRY 1YL4.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 5.50 ANGSTROMS.
Position (1807, 1830), (1813, 1822)
Primary structure ('_': anchors) _GCGAA_-_GAGGUAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 4: C4'-exo, 5: C4'-exo, 6: C2'-exo, 10: C4'-exo, 11: C2'-exo, 12: C2'-exo, 16: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 8 9 ↑
2 10 12 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Sugar/O2' ?
2 1 16 Watson-Crick/Watson-Crick cis
3 2 13 O2'/Bifurcated ?
4 2 14 O2'/Bifurcated ?
5 5 9 Bifurcated/O2' ?
6 5 10 Bifurcated/O2' ?
7 5 12 Sugar/Hoogsteen trans y
8 6 9 O2'/Bifurcated ?
9 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters