Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-7-Internal Loop pdb1vsa1w.n1801-1836
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 (1807, 1830), (1813, 1822)
Primary structure ('_': anchors) _GCGAA_-_GAGGUAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C3'-exo, 5: C2'-exo, 6: C2'-exo, 9: C2'-exo, 10: C3'-exo, 11: C2'-exo, 13: C3'-exo, 14: C3'-exo, 15: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 14 ↑
2 3 5 →
3 5 6 ↑
4 9 10 &larr
5 10 12 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 5 C/O2' cis y
2 1 16 Watson-Crick/Watson-Crick cis y
3 2 13 O2'/Bifurcated ?
4 2 14 O2'/Bifurcated ?
5 3 12 Watson-Crick/Watson-Crick trans
6 3 14 Hoogsteen/Hoogsteen trans y
7 5 10 Bifurcated/O2' trans
8 6 9 Sugar/Bifurcated trans y
9 7 8 Watson-Crick/Watson-Crick cis
10 9 10 O2'/Hoogsteen ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters