Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-6-Internal Loop pdb1vsaFw.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
FLIPPED INTERNAL
Source: Resolution 3.71 ANGSTROMS.
Position (1232, 1263), (1239, 1259)
Primary structure ('_': anchors) _GGA_-_GAUGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
2: C2'-endo, 3: C3'-exo, 5: C2'-exo, 8: C2'-exo, 9: C3'-exo, 10: C3'-exo, 11: C3'-exo, 13: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 8
2 2 11
3 3 9 &larr
4 4 5
5 6 7
6 7 8
7 12 13
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 O2'/Sugar ?
2 1 13 Watson-Crick/Watson-Crick cis
3 2 9 Hoogsteen/Sugar trans
4 3 8 Sugar/Hoogsteen trans y
5 3 9 Bifurcated/O2' ?
6 4 7 O2'/Bifurcated trans
7 5 6 Watson-Crick/Watson-Crick cis
8 11 12 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters