Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-7-Internal Loop pdb1vspFw.n1059-1146
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 (1068, 1137), (1076, 1133)
Primary structure ('_': anchors) _CGA_-_GAAGACA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C4'-exo, 2: C3'-exo, 3: C3'-exo, 7: C2'-exo, 9: C2'-exo, 10: C3'-exo, 11: C3'-exo, 12: C3'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 13 →
2 2 9 →
3 3 4 ↑
4 3 10 &larr
5 4 5 ↑
6 8 9 ↑
7 10 12 →
8 13 14 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 O2'/Sugar ?
2 1 14 Watson-Crick/Watson-Crick cis
3 2 3 Hoogsteen/O2' ?
4 2 10 Hoogsteen/Sugar trans
5 3 9 Sugar/Hoogsteen trans
6 3 10 O2'/Bifurcated ?
7 5 6 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters