Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2hgpFA.n397-427
Source: [PDB-id:chain] 2hgp:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE 70S THERMUS THERMOPHILUS RIBOSOME WITH TRANSLOCATED AND ROTATED SHINE-DALGARNO DUPLEX. THIS ENTRY 2HGP CONTAINS 30S RIBOSOMAL SUBUNIT. THE 50S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGQ.
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 5.50 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C4'-exo, 12: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 4 6 →
2 8 9 ↑
3 9 10 ↑
4 11 13 ↑
5 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 2 14 Watson-Crick/Sugar trans y
3 3 14 O2'/Watson-Crick ?
4 4 10 Bifurcated/Hoogsteen trans y
5 6 7 Hoogsteen/Watson-Crick cis y
6 6 9 Watson-Crick/Hoogsteen cis y
7 6 11 O2'/Bifurcated ?
8 6 13 Sugar/Watson-Crick trans y
9 7 8 Watson-Crick/Watson-Crick cis
10 11 13 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters