Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-5-Internal Loop pdb3dllFX.n1707-1717
Source: [PDB-id:chain] 3dll:X (&rarr PDB)
Source: Information THE OXAZOLIDINONE ANTIBIOTICS PERTURB THE RIBOSOMAL PEPTIDYL-TRANSFERASE CENTER AND EFFECT TRNA POSITIONING
Source: Compound RRNA-23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.50 ANGSTROMS.
Position (1701, 1725), (1707, 1717)
Primary structure ('_': anchors) _GACGUAU_-_GCCAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 7: O4'-endo, 13: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 15 ↓
2 4 5 ↑
3 5 7 →
4 7 8 &larr
5 8 9 ↑
6 10 11 ↑
7 11 12 ↑
8 12 14 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 3 15 O2'/Bifurcated ?
3 4 15 O2'/Bifurcated ?
4 7 12 Bifurcated/O2' ?
5 8 11 Sugar/Hoogsteen trans y
6 9 10 Watson-Crick/Watson-Crick cis
7 12 16 Sugar/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters