Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'26-Segment pdb1z5812.i401-428
Source: [PDB-id:chain] 1z58:2 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A COMPLEX OF THE RIBOSOME LARGE SUBUNIT WITH RAPAMYCIN
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.80 ANGSTROMS.
Position (401, 428)
Primary structure ('_': anchors) _GAUAGCGCAUAGUACCGUGAGGGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 10 ↓
3 3 28 ↑
4 5 6 ↑
5 7 9 &larr
6 8 9 ↑
7 8 13 →
8 12 14 →
9 13 24 &larr
10 14 15 ↑
11 15 16 ↑
12 17 18 ↑
13 20 21 ↑
14 22 23 ↑
15 23 24 ↑
16 25 26 ↑
17 26 27 ↑
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 10 O2'/Watson-Crick ?
4 7 10 O2'/Bifurcated ?
5 9 27 Bifurcated/O2' ?
6 12 13 Sugar/Bifurcated cis y
7 13 25 O2'/Bifurcated ?
8 14 24 Watson-Crick/O2' ?
9 14 25 Hoogsteen/Watson-Crick trans y
10 15 24 Sugar/Hoogsteen trans y
11 16 23 Watson-Crick/Watson-Crick cis
12 18 20 O2'/Sugar ?
13 18 21 O2'/Bifurcated ?
14 21 22 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters