Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'19-Segment pdb3dll1X.i434-454
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
Source: Resolution 3.50 ANGSTROMS.
Position (434, 454)
Primary structure ('_': anchors) _AGUGAAAGAGAACCUGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		8: C4'-exo, 9: C2'-exo, 13: C4'-exo, 17: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn, 13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 4 5 ↑
5 6 7 ↑
6 7 10 ↑
7 8 10 ↓
8 8 11 ↑
9 15 16 ↑
10 18 19 ↑
11 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 3 11 Watson-Crick/Watson-Crick trans y
2 4 8 Hoogsteen/Watson-Crick trans y
3 5 6 Hoogsteen/O2' ?
4 5 7 O2'/Hoogsteen ?
5 5 8 O2'/Watson-Crick ?
6 16 17 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters