Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-8-7-3-Multiloop pdb1yl31A.m1780-1980
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 (1781, 1979), (1785, 1797), (1806, 1831), (1839, 1975)
Primary structure ('_': anchors) _ACU_-_ACAGCUCU_-_GGAGCGA_-_UAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 4: C2'-exo, 5: C2'-exo, 9: C2'-exo, 14: C4'-exo, 19: C4'-exo, 20: C2'-exo, 22: C4'-exo, 23: C2'-exo, 26: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 2 23 →
3 5 7 →
4 6 7 ↑
5 10 11 ↑
6 11 12 ↑
7 16 17 ↑
8 18 19 ↑
9 19 20 ↑
10 23 24 ↑
11 25 26 ↑
12 27 28 ↑
13 28 29 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 O2'/Sugar ?
2 1 29 Watson-Crick/Watson-Crick cis
3 2 8 Bifurcated/O2' ?
4 2 27 Watson-Crick/Sugar trans
5 3 7 Bifurcated/O2' ?
6 5 6 Watson-Crick/Watson-Crick cis
7 9 22 O2'/Bifurcated ?
8 11 20 Watson-Crick/Watson-Crick cis
9 13 18 Watson-Crick/Watson-Crick cis y
10 14 17 Watson-Crick/Bifurcated cis y
11 15 16 Watson-Crick/Watson-Crick cis
12 23 26 Bifurcated/Bifurcated trans y
13 24 25 Watson-Crick/Watson-Crick cis
14 26 27 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters