Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'7-5-Internal Loop pdb1n34FA.n239-267
Source: [PDB-id:chain] 1n34:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN THE PRESENCE OF CODON AND CRYSTALLOGRAPHICALLY DISORDERED NEAR-COGNATE TRANSFER RNA ANTICODON STEM-LOOP MISMATCHED AT THE FIRST CODON POSITION
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.80 ANGSTROMS.
Position (233, 275), (239, 267)
Primary structure ('_': anchors) _CGACGAC_-_AUCAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C2'-endo, 12: C2'-endo, 14: C2'-endo, 15: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 13 →
2 2 3 ↑
3 3 12 →
4 6 12 ↑
5 7 8 ↑
6 7 11 →
7 8 9 ↑
8 10 11 ↑
9 12 15 ↑
10 13 15 ↓
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 2 3 Bifurcated/O2' ?
3 2 13 Watson-Crick/Watson-Crick cis y
4 3 11 Watson-Crick/O2' ?
5 3 15 Hoogsteen/Watson-Crick trans
6 4 12 Sugar/Hoogsteen trans
7 4 15 O2'/Bifurcated ?
8 7 12 O2'/Watson-Crick ?
9 9 10 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters