Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-7-Internal Loop pdb3dll1Z.n71-108
Source: [PDB-id:chain] 3dll:Z (&rarr PDB)
Source: Information THE OXAZOLIDINONE ANTIBIOTICS PERTURB THE RIBOSOMAL PEPTIDYL-TRANSFERASE CENTER AND EFFECT TRNA POSITIONING
Source: Compound RRNA-5S RIBOSOMAL RNA
Source: Resolution 3.50 ANGSTROMS.
Position (72, 107), (80, 99)
Primary structure ('_': anchors) _AAUGAUA_-_AAAAGUC_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-exo, 7: C4'-exo, 12: C2'-exo, 18: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 4 5 ↑
4 5 6 ↑
5 6 7 ↑
6 8 9 ↑
7 8 12 →
8 10 11 ↑
9 12 13 ↑
10 13 14 ↑
11 14 15 ↑
12 15 16 ↑
13 16 17 ↑
14 17 18 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 18 Watson-Crick/Watson-Crick cis
2 2 17 Watson-Crick/Sugar trans y
3 3 16 Watson-Crick/Hoogsteen trans
4 4 15 Watson-Crick/Bifurcated trans
5 6 14 Watson-Crick/Watson-Crick cis y
6 7 12 Hoogsteen/Watson-Crick trans
7 8 11 Sugar/Hoogsteen trans y
8 9 10 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters