Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-7-Internal Loop pdb1xmo1A.n667-678
Source: [PDB-id:chain] 1xmo:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF MNM5U34T6A37-TRNALYSUUU COMPLEXED WITH AAG-MRNA IN THE DECODING CENTER
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.25 ANGSTROMS.
Position (662, 686), (667, 678)
Primary structure ('_': anchors) _AGUA_-_GCAGAUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: O4'-endo, 9: C4'-exo, 10: C2'-endo, 11: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 5 9 ↑
5 5 12 →
6 6 8 →
7 7 8 ↑
8 9 11 →
9 12 13 ↑
10 13 14 ↑
11 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 12 O2'/Bifurcated ?
3 3 13 Hoogsteen/Sugar trans y
4 4 12 Hoogsteen/Watson-Crick trans
5 5 8 O2'/Watson-Crick trans y
6 5 11 Sugar/Hoogsteen trans
7 6 7 Watson-Crick/Watson-Crick cis
8 6 12 Watson-Crick/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters