Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-9-Internal Loop pdb2uxdFA.n392-401
Source: [PDB-id:chain] 2uxd:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF AN EXTENDED TRNA ANTICODON STEM LOOP IN COMPLEX WITH ITS COGNATE MRNA CGGG IN THE CONTEXT OF THE THERMUS THERMOPHILUS 30S SUBUNIT.
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.2 ANGSTROMS.
Position (382, 410), (392, 401)
Primary structure ('_': anchors) _UGUAAACU_-_AGGAAGAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: C2'-endo, 8: C2'-endo, 16: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		7: syn, 17: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↑
3 4 5 ↑
4 5 6 ↑
5 6 8 →
6 7 17 →
7 7 18 &larr
8 8 9 &larr
9 9 10 ↑
10 11 12 ↑
11 12 13 ↑
12 13 14 ↑
13 15 17 ↑
14 18 19 ↑
15 19 20 ↑
16 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 21 Watson-Crick/Watson-Crick cis
2 4 18 Bifurcated/O2' trans y
3 5 7 Hoogsteen/Watson-Crick cis
4 5 18 O2'/Watson-Crick ?
5 8 14 Bifurcated/O2' ?
6 10 11 Watson-Crick/Watson-Crick cis
7 15 17 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters