Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb2hgp1A.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
Source: Resolution 5.50 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GAAGAA_-_GUAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 5 ↑
3 6 7 ↑
4 7 8 ↑
5 10 12 →
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 2 13 O2'/Watson-Crick ?
3 2 14 Watson-Crick/Sugar trans y
4 3 5 O2'/Sugar ?
5 3 10 Sugar/Watson-Crick trans y
6 5 10 O2'/Bifurcated ?
7 6 12 Bifurcated/Hoogsteen trans y
8 7 10 Watson-Crick/Hoogsteen cis y
9 8 9 Watson-Crick/Watson-Crick cis
10 9 10 Hoogsteen/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters