Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'2-6-Internal Loop pdb1u631D.n2-48
Source: [PDB-id:chain] 1u63:D (&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) 		1: C2'-exo, 2: C4'-exo, 3: C4'-exo, 4: C2'-exo, 6: C2'-exo, 9: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn, 9: syn, 10: 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 11 Hoogsteen/Sugar trans
3 3 6 Sugar/Sugar trans y
4 4 5 Watson-Crick/Watson-Crick cis
5 4 11 O2'/Bifurcated trans y
6 6 11 C/O2' ?
7 11 12 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters