Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'15-Segment pdb1yl31A.i471-487
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 (471, 487)
Primary structure ('_': anchors) _GAUAGCGCACCAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C4'-exo, 4: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		10: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 8 9 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 Sugar/O2' ?
2 3 5 Hoogsteen/O2' ?
3 6 9 O2'/Hoogsteen ?
4 6 10 O2'/Watson-Crick ?
5 7 8 Hoogsteen/O2' ?
6 7 10 O2'/Bifurcated ?
7 9 13 Hoogsteen/O2' ?
8 10 11 Watson-Crick/O2' ?
9 13 15 Hoogsteen/O2' ?
10 16 17 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters