Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-6-Internal Loop pdb1n361A.n1392-1459
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
Source: Resolution 3.65 ANGSTROMS.
Position (1394, 1457), (1401, 1450)
Primary structure ('_': anchors) _GAGCGG_-_CCGUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 14 &larr
3 3 4 ↑
4 3 15 →
5 4 5 ↑
6 6 7 ↑
7 6 12 →
8 7 8 ↑
9 12 13 ↑
10 13 14 ↑
11 15 16 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 16 Watson-Crick/Watson-Crick cis
2 3 14 O2'/Bifurcated ?
3 4 14 Sugar/Hoogsteen cis y
4 7 11 Watson-Crick/Watson-Crick cis
5 8 9 Watson-Crick/Watson-Crick cis
6 14 15 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters