Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-7-Internal Loop pdb1n36FA.n407-418
Source: [PDB-id:chain] 1n36:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 30S RIBOSOMAL SUBUNIT IN THE PRESENCE OF CRYSTALLOGRAPHICALLY DISORDERED CODON AND NEAR-COGNATE TRANSFER RNA ANTICODON STEM-LOOP MISMATCHED AT THE SECOND CODON POSITION
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.65 ANGSTROMS.
Position (399, 425), (407, 418)
Primary structure ('_': anchors) _GUAAAC_-_GGAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		6: C2'-endo, 11: C4'-exo, 13: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		6: syn, 13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 3 ↑
2 3 4 ↑
3 4 5 ↑
4 4 11 →
5 5 7 →
6 6 15 &larr
7 9 10 ↑
8 10 11 ↑
9 12 14 ↑
10 15 16 ↑
11 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 4 6 Hoogsteen/Watson-Crick cis y
3 4 15 O2'/Bifurcated ?
4 7 11 Bifurcated/O2' ?
5 7 12 O2'/Bifurcated trans y
6 8 9 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters