Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2qa419.n16-64
Source: [PDB-id:chain] 2qa4:9 (&rarr PDB)
Source: Information A MORE COMPLETE STRUCTURE OF THE THE L7/L12 STALK OF THE HALOARCULA MARISMORTUI 50S LARGE RIBOSOMAL SUBUNIT
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 3.00 ANGSTROMS.
Position (21, 59), (30, 50)
Primary structure ('_': anchors) _GUUGCCUC_-_AAGAUAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		12: C3'-exo, 16: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		16: syn, 18: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 16 &larr
2 5 6 ↑
3 7 8 ↑
4 8 9 ↑
5 9 10 ↑
6 11 12 ↑
7 13 14 ↑
8 14 15 ↑
9 17 18 &larr
10 18 19 →
11 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 2 16 O2'/Hoogsteen ?
3 7 16 Watson-Crick/Watson-Crick cis y
4 7 19 Watson-Crick/Watson-Crick cis y
5 8 15 Watson-Crick/Watson-Crick cis
6 10 11 Watson-Crick/Watson-Crick cis y
7 10 12 Bifurcated/Watson-Crick cis y
8 10 13 Watson-Crick/O2' ?
9 12 13 Hoogsteen/Sugar cis y
10 15 17 Hoogsteen/Sugar cis y
11 19 20 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters