Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb1yl31A.n75-108
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 (80, 103), (84, 96)
Primary structure ('_': anchors) _GGA_-_GUGGAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 8: 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 2 3 ↑
3 5 7 →
4 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 10 Bifurcated/O2' ?
3 2 11 O2'/Watson-Crick ?
4 3 4 C/O2' ?
5 3 10 O2'/Watson-Crick trans y
6 4 7 Bifurcated/O2' ?
7 4 8 O2'/Watson-Crick ?
8 4 10 O2'/Watson-Crick ?
9 4 11 Bifurcated/O2' ?
10 5 6 Watson-Crick/Watson-Crick cis
11 5 11 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters