Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-5-Internal Loop pdb1s1i13.n240-251
Source: [PDB-id:chain] 1s1i:3 (&rarr PDB)
Source: Information STRUCTURE OF THE RIBOSOMAL 80S-EEF2-SORDARIN COMPLEX FROM YEAST OBTAINED BY DOCKING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS INTO A 11.7 A CRYO-EM MAP. THIS FILE, 1S1I, CONTAINS 60S SUBUNIT. THE 40S RIBOSOMAL SUBUNIT IS IN FILE 1S1H.
Source: Compound 5.8S/25S RIBOSOMAL RNAILS: REPRESENTED BY THE ANALOGOUS MOLECULE OF H.
Source: Resolution 1.70 ANGSTROMS.
Position (236, 257), (240, 251)
Primary structure ('_': anchors) _GAA_-_AAUGU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 3: C2'-endo, 9: C2'-endo, 10: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 10 &larr
3 3 8 ↑
4 3 11 →
5 6 7 ↑
6 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 10 Bifurcated/O2' ?
3 2 11 Hoogsteen/Sugar trans y
4 3 7 O2'/Watson-Crick ?
5 3 8 Bifurcated/O2' ?
6 3 10 Sugar/Hoogsteen trans
7 4 11 Watson-Crick/Watson-Crick cis
8 5 6 Watson-Crick/Watson-Crick cis
9 5 11 O2'/Sugar ?
10 8 10 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters