Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-3-Internal Loop pdb1vsa1w.n1230-1265
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 (1232, 1263), (1239, 1259)
Primary structure ('_': anchors) _GAUGAA_-_GGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 3: C3'-exo, 4: C3'-exo, 5: C3'-exo, 6: C2'-exo, 9: C2'-exo, 11: C3'-exo, 12: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 12 ↓
3 5 11 &larr
4 6 7 ↑
5 6 12 →
6 7 8 ↑
7 9 10 ↑
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 5 11 Bifurcated/O2' ?
4 5 12 Hoogsteen/Sugar trans
5 6 11 Sugar/Hoogsteen trans y
6 6 13 O2'/Sugar ?
7 7 10 O2'/Bifurcated trans
8 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters