Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-8-Internal Loop pdb1s1i13.n755-895
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 (756, 894), (762, 885)
Primary structure ('_': anchors) _CGAAU_-_CAACAGCU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 9: C2'-endo, 10: C2'-endo, 14: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 4 5 ↑
3 4 13 →
4 6 7 ↑
5 6 11 →
6 8 9 &larr
7 11 12 ↑
8 12 13 ↑
9 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 2 16 Watson-Crick/Watson-Crick cis y
3 3 15 Watson-Crick/Watson-Crick cis
4 4 12 Watson-Crick/Hoogsteen trans
5 5 11 Watson-Crick/Hoogsteen trans
6 6 9 Watson-Crick/Watson-Crick trans y
7 7 8 Watson-Crick/Watson-Crick cis
8 14 15 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters