Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'22-Segment pdb1yl31A.i201-224
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 (201, 224)
Primary structure ('_': anchors) _AGGAGAGGAAAGAGAAAUCGAC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 6: C2'-exo, 7: C4'-exo, 10: C2'-exo, 11: C4'-exo, 12: C4'-exo, 17: C4'-exo, 19: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		10: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 5 6 ↑
5 6 7 ↑
6 8 9 ↑
7 11 13 ↑
8 13 14 ↑
9 14 15 ↑
10 19 20 ↑
11 22 23 ↑
12 23 24 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 2 6 O2'/Sugar ?
2 7 24 O2'/Bifurcated ?
3 8 23 O2'/Sugar cis y
4 13 20 Watson-Crick/Watson-Crick cis
5 15 16 Sugar/Watson-Crick cis y
6 20 21 Sugar/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters