Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb1vsa1w.n733-750
Source: [PDB-id:chain] 1vsa:w (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF A 70S RIBOSOME-TRNA COMPLEX REVEALS FUNCTIONAL INTERACTIONS AND REARRANGEMENTS. THIS FILE, 1VSA, CONTAINS THE 50S RIBOSOME SUBUNIT. 30S RIBOSOME SUBUNIT IS IN THE FILE 2OW8
Source: Compound 23S LARGE SUBUNIT RIBOSOMAL RNA
Source: Resolution 3.71 ANGSTROMS.
Position (728, 756), (733, 750)
Primary structure ('_': anchors) _UGAA_-_GGAGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-exo, 7: C2'-exo, 10: C2'-exo, 11: C4'-exo, 12: C3'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 9 &larr
4 4 10 →
5 5 6 ↑
6 7 8 ↑
7 10 11 ↑
8 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 3 Hoogsteen/O2' ?
3 2 11 Watson-Crick/Watson-Crick cis
4 3 10 Bifurcated/O2' trans
5 4 8 Bifurcated/O2' ?
6 4 9 O2'/Bifurcated ?
7 5 8 O2'/Bifurcated trans
8 6 7 Watson-Crick/Watson-Crick cis
9 7 8 Hoogsteen/O2' ?
10 9 10 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters