Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-5-Internal Loop pdb1vsa1w.n864-964
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 (870, 958), (876, 952)
Primary structure ('_': anchors) _GCUGA_-_GUGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 5: C2'-exo, 6: C2'-exo, 11: C2'-exo, 13: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		10: syn, 11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 6 7 ↑
3 11 13 ↑
4 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 14 Watson-Crick/Watson-Crick cis
2 2 4 Watson-Crick/O2' ?
3 2 13 Bifurcated/O2' trans
4 3 4 Hoogsteen/Sugar cis y
5 3 9 Hoogsteen/O2' ?
6 3 11 Watson-Crick/Watson-Crick cis
7 4 13 Watson-Crick/Watson-Crick cis y
8 5 9 Watson-Crick/O2' ?
9 5 11 Sugar/Hoogsteen trans y
10 5 13 O2'/Sugar ?
11 6 7 Bifurcated/O2' ?
12 6 9 Sugar/Hoogsteen trans
13 7 8 Watson-Crick/Watson-Crick cis
14 10 11 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters