Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2qa4F9.n30-50
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
FLIPPED INTERNAL
Source: Resolution 3.00 ANGSTROMS.
Position (21, 59), (30, 50)
Primary structure ('_': anchors) _AAGAUAAG_-_GUUGCCUC_
Bases with unusual sugar puckers
(Standard: C3'-endo)
5: C2'-endo, 9: C3'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
3: syn, 5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2
2 2 3
3 3 4 &larr
4 5 19 &larr
5 6 7
6 7 8
7 9 10
8 11 12
9 12 13
10 13 14
11 15 16
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 Bifurcated/O2' ?
2 1 20 Watson-Crick/Watson-Crick cis
3 2 14 Watson-Crick/Watson-Crick cis y
4 4 6 Hoogsteen/Sugar cis y
5 5 14 Watson-Crick/Watson-Crick cis y
6 5 19 O2'/Hoogsteen ?
7 6 13 Watson-Crick/Watson-Crick cis
8 8 9 Hoogsteen/Sugar cis y
9 8 11 Watson-Crick/O2' ?
10 9 11 Bifurcated/Watson-Crick cis y
11 10 11 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters