Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-7-Internal Loop pdb2gya10.n2499-2630
Source: [PDB-id:chain] 2gya:0 (&rarr PDB)
Source: Information STRUCTURE OF THE 50S SUBUNIT OF A PRE-TRANSLOCATIONAL E. COLI RIBOSOME OBTAINED BY FITTING ATOMIC MODELS FOR RNA AND PROTEIN COMPONENTS INTO CRYO-EM MAP EMD-1056
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 2.00 ANGSTROMS.
Position (2495, 2638), (2499, 2630)
Primary structure ('_': anchors) _UGA_-_GAGAUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 8: C4'-exo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 14 →
2 3 7 &larr
3 4 5 ↑
4 4 10 →
5 6 7 ↑
6 8 10 ↓
7 8 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 8 Hoogsteen/Watson-Crick trans
3 3 8 O2'/Bifurcated ?
4 3 10 Bifurcated/O2' ?
5 5 6 Watson-Crick/Watson-Crick cis
6 9 11 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters