Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb3dllFX.n1955-2046
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 (1959, 2042), (1965, 2035)
Primary structure ('_': anchors) _UGGCGG_-_AGUCU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: O4'-endo, 9: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 14 →
2 3 4 ↑
3 4 5 ↑
4 5 6 ↑
5 10 11 ↑
6 12 13 ↑
7 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 3 Hoogsteen/O2' ?
2 1 15 Watson-Crick/Watson-Crick cis
3 3 14 O2'/Bifurcated trans
4 4 13 Watson-Crick/Watson-Crick cis y
5 6 11 Watson-Crick/Watson-Crick cis
6 7 10 Watson-Crick/Watson-Crick cis y
7 8 9 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters