Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb1yhq10.n792-809
Source: [PDB-id:chain] 1yhq:0 (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF AZITHROMYCIN BOUND TO THE G2099A MUTANT 50S RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 2.40 ANGSTROMS.
Position (787, 815), (792, 809)
Primary structure ('_': anchors) _UGAA_-_GGAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C2'-exo, 9: C2'-endo, 11: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 9 &larr
4 4 5 ↑
5 4 10 →
6 5 6 ↑
7 7 8 ↑
8 8 9 ↑
9 10 11 ↑
10 11 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 11 Watson-Crick/Watson-Crick cis y
3 3 9 O2'/Bifurcated ?
4 3 10 Hoogsteen/Sugar trans
5 4 8 Watson-Crick/O2' ?
6 4 9 Sugar/Hoogsteen trans
7 5 8 O2'/Bifurcated trans
8 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters