Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'9-7-Internal Loop pdb1n33FA.n1239-1250
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
FLIPPED INTERNAL
Source: Resolution 3.35 ANGSTROMS.
Position (1231, 1260), (1239, 1250)
Primary structure ('_': anchors) _GAGCUAAUC_-_GAUGCCA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 6: C4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn, 6: syn, 17: syn, 18: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 19 →
2 5 19 ↑
3 8 9 ↑
4 9 13 →
5 10 11 ↑
6 12 13 ↑
7 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Sugar/O2' ?
2 1 20 Watson-Crick/Watson-Crick cis
3 2 3 Bifurcated/O2' ?
4 2 5 Bifurcated/O2' ?
5 5 18 Bifurcated/O2' ?
6 10 13 Sugar/Hoogsteen trans
7 11 12 Watson-Crick/Watson-Crick cis y
8 16 19 Sugar/O2' ?
9 17 18 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters