Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-8-Internal Loop pdb1n331A.n1110-1120
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 (1100, 1129), (1110, 1120)
Primary structure ('_': anchors) _AGUUGCCAG_-_GGCACUCU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 21: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 5 6 ↑
2 9 16 →
3 10 11 ↑
4 12 13 ↑
5 13 14 ↑
6 16 17 ↑
7 17 18 ↑
8 18 19 ↑
9 19 20 ↑
10 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 21 Watson-Crick/Watson-Crick cis
2 3 15 Bifurcated/O2' ?
3 5 18 Watson-Crick/Watson-Crick cis y
4 6 15 Watson-Crick/Watson-Crick cis
5 7 9 Hoogsteen/O2' ?
6 7 13 Watson-Crick/Watson-Crick cis y
7 8 10 Hoogsteen/O2' ?
8 11 12 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters