Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-3-Internal Loop pdb1n331A.n368-377
Source: [PDB-id:chain] 1n33:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT BOUND TO CODON AND NEAR-COGNATE TRANSFER RNA ANTICODON STEM-LOOP MISMATCHED AT THE SECOND CODON POSITION AT THE A SITE WITH PAROMOMYCIN
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.35 ANGSTROMS.
Position (362, 381), (368, 377)
Primary structure ('_': anchors) _CAAUG_-_UGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C4'-exo, 10: C2'-endo, 11: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 4 5 ↑
3 5 6 ↑
4 6 7 ↑
5 6 11 →
6 8 9 ↑
7 11 12 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 3 Hoogsteen/O2' ?
2 1 12 Watson-Crick/Watson-Crick cis
3 2 10 O2'/Bifurcated ?
4 2 11 Hoogsteen/Watson-Crick trans y
5 4 12 O2'/Watson-Crick ?
6 5 11 Watson-Crick/Watson-Crick cis
7 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters