Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb1vspFw.n876-952
Source: [PDB-id:chain] 1vsp:w (&rarr PDB)
Source: Information INTERACTIONS AND DYNAMICS OF THE SHINE-DALGARNO HELIX IN THE 70S RIBOSOME. THIS FILE, 1VSP, CONTAINS THE 50S RIBOSOME SUBUNIT. 30S RIBOSOME SUBUNIT IS IN THE FILE 2QNH
Source: Compound 23S LARGE SUBUNIT RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.83 ANGSTROMS.
Position (884, 944), (889, 938)
Primary structure ('_': anchors) _CCGAA_-_GUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 7: C3'-exo, 9: C2'-exo, 11: C2'-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 4 5 ↑
4 4 12 &larr
5 8 9 ↑
6 9 10 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 Hoogsteen/O2' ?
2 1 13 Watson-Crick/Watson-Crick cis y
3 4 10 Sugar/Hoogsteen trans y
4 4 12 Watson-Crick/O2' ?
5 5 9 Watson-Crick/Watson-Crick cis
6 7 8 Watson-Crick/Watson-Crick cis
7 9 10 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters