Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-2-Internal Loop pdb2hgqFA.n2630-2765
Source: [PDB-id:chain] 2hgq:A (&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 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 5.50 ANGSTROMS.
Position (2627, 2772), (2630, 2765)
Primary structure ('_': anchors) _AAGAUG_-_GA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 2: C2'-exo, 5: C2'-exo, 8: C2'-exo, 12: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		2: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 6 ↑
2 4 6 ↓
3 4 10 →
4 7 8 ↑
5 7 9 →
6 7 11 &larr
7 9 10 ↑
8 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 12 Watson-Crick/Watson-Crick cis
2 2 3 Hoogsteen/O2' ?
3 6 11 O2'/Watson-Crick trans y
4 7 10 Sugar/Hoogsteen trans y
5 8 9 Watson-Crick/Watson-Crick cis
6 9 10 Hoogsteen/O2' ?
7 10 11 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters