Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-Internal Loop pdb2hgq1B.n30-58
Source: [PDB-id:chain] 2hgq:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE 70S THERMUS THERMOPHILUS RIBOSOME WITH TRANSLOCATED AND ROTATED SHINE-DALGARNO DUPLEX. THIS ENTRY 2HGQ CONTAINS 50S RIBOSOMAL SUBUNIT. THE 30S RIBOSOMAL SUBUNIT CAN BE FOUND IN PDB ENTRY 2HGP.
Source: Compound 5S RIBOSOMAL RNA
Source: Resolution 5.50 ANGSTROMS.
Position (25, 62), (30, 58)
Primary structure ('_': anchors) _GAAC_-_AAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-exo, 6: C2'-exo, 8: C2'-exo, 10: C2'-exo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 7 &larr
2 3 4 ↑
3 5 6 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 4 Bifurcated/O2' ?
2 1 11 Watson-Crick/Watson-Crick cis
3 2 4 Hoogsteen/O2' ?
4 2 5 Watson-Crick/Sugar cis y
5 6 7 Watson-Crick/Watson-Crick cis y
6 9 11 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters