Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-6-Internal Loop pdb1u631B.n13-33
Source: [PDB-id:chain] 1u63:B (&rarr PDB)
Source: Information THE STRUCTURE OF A RIBOSOMAL PROTEIN L1-MRNA COMPLEX
Source: Compound 49 NT FRAGMENT OF MRNA FOR L1
Source: Resolution 3.40 ANGSTROMS.
Position (10, 40), (13, 33)
Primary structure ('_': anchors) _GA_-_GAGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 5: C2'-exo, 6: C2'-exo, 8: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 11 →
3 4 6 →
4 6 7 &larr
5 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 O2'/Bifurcated ?
3 2 11 Bifurcated/O2' trans
4 3 6 Bifurcated/O2' trans
5 4 5 Watson-Crick/Watson-Crick cis
6 4 11 O2'/Bifurcated trans y
7 6 11 C/O2' ?
8 7 8 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters