Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'22-Segment pdb3dll1X.i1004-1027
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 (1004, 1027)
Primary structure ('_': anchors) _UCAAAGAGUGCGUAAUAGCUCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-exo, 20: C4'-exo, 21: C2'-exo, 23: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 8: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 4 5 ↑
4 5 6 &larr
5 7 23 →
6 10 11 ↑
7 11 12 ↑
8 12 13 ↑
9 13 14 ↑
10 15 16 ↑
11 18 19 ↑
12 19 20 ↑
13 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 3 4 Hoogsteen/O2' ?
2 3 5 O2'/Hoogsteen ?
3 6 23 Watson-Crick/O2' ?
4 7 22 Watson-Crick/Watson-Crick cis
5 10 21 Watson-Crick/Watson-Crick cis y
6 11 20 Watson-Crick/Watson-Crick cis
7 13 18 Hoogsteen/Sugar trans y
8 14 15 Hoogsteen/O2' ?
9 14 17 O2'/Watson-Crick ?
10 23 24 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters