Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-5-Internal Loop pdb1s1iF3.n1939-1948
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.
FLIPPED INTERNAL
Source: Resolution 1.70 ANGSTROMS.
Position (1933, 1956), (1939, 1948)
Primary structure ('_': anchors) _CUCGUAC_-_GCAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 3: C2'-endo, 4: C2'-endo, 6: C2'-endo, 7: C2'-endo, 13: C2'-endo, 14: C4'-exo, 15: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		15: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 3 →
2 3 15 ↓
3 4 5 ↑
4 5 7 →
5 7 8 &larr
6 8 9 ↑
7 10 11 ↑
8 11 12 ↑
9 12 14 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 3 14 Hoogsteen/Hoogsteen trans y
3 3 15 O2'/Bifurcated ?
4 4 15 O2'/Bifurcated ?
5 5 14 Watson-Crick/Watson-Crick trans
6 7 12 Hoogsteen/Hoogsteen trans y
7 8 11 Watson-Crick/Watson-Crick cis y
8 9 10 Watson-Crick/Watson-Crick cis
9 12 16 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters