Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-Internal Loop pdb1yl31A.n2819-2845
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 (2821, 2843), (2826, 2839)
Primary structure ('_': anchors) _GUAA_-_UGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 7: C4'-exo, 8: C4'-exo, 9: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 8: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 11 Watson-Crick/Watson-Crick cis y
2 2 3 Watson-Crick/Sugar cis y
3 2 9 O2'/Bifurcated cis y
4 4 8 Watson-Crick/Hoogsteen trans y
5 4 10 O2'/Hoogsteen ?
6 6 7 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters