Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb3cma19.n81-101
Source: [PDB-id:chain] 3cma:9 (&rarr PDB)
Source: Information THE STRUCTURE OF CCA AND CCA-PHE-CAP-BIO BOUND TO THE LARGE RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 2.80 ANGSTROMS.
Position (75, 106), (81, 101)
Primary structure ('_': anchors) _GAGUA_-_GAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: unknown
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 &larr
3 3 5 →
4 6 7 ↑
5 6 10 →
6 8 9 ↑
7 10 11 ↑
8 11 12 ↑
9 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis y
2 2 12 Bifurcated/O2' trans
3 3 11 Hoogsteen/Hoogsteen trans
4 4 5 ?/? ? y
5 4 9 Watson-Crick/O2' ?
6 4 10 O2'/Watson-Crick ?
7 5 9 Watson-Crick/O2' ?
8 5 10 Hoogsteen/Watson-Crick trans
9 6 9 O2'/Bifurcated trans
10 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters