Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-9-Internal Loop pdb1n33FA.n1096-1133
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 (1100, 1129), (1110, 1120)
Primary structure ('_': anchors) _GGCACUCU_-_AGUUGCCAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-endo, 19: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 4 5 ↑
5 5 6 ↑
6 6 13 →
7 8 9 ↑
8 9 10 ↑
9 11 12 ↑
10 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 21 Watson-Crick/Watson-Crick cis
2 4 17 Watson-Crick/Watson-Crick cis y
3 7 16 Watson-Crick/Watson-Crick cis
4 7 19 Bifurcated/O2' ?
5 9 15 Watson-Crick/Watson-Crick cis y
6 10 11 Watson-Crick/Watson-Crick cis y
7 12 14 Hoogsteen/O2' ?
8 13 15 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters