Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-6-4-6-2-Multiloop pdb1n361A.m28-531
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 (32, 527), (39, 390), (397, 427), (432, 472), (479, 524)
Primary structure ('_': anchors) _UGGCGG_-_CCGCUU_-_UGAA_-_GUAAUA_-_GA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		7: C2'-exo, 8: C4'-exo, 26: C2'-endo, 27: C2'-endo, 29: C2'-endo, 33: 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 4 5 ↑
3 4 28 →
4 5 6 ↑
5 6 7 ↑
6 6 12 →
7 7 8 ↑
8 9 10 ↑
9 10 11 ↑
10 12 13 ↑
11 16 26 ↓
12 20 21 ↑
13 20 27 →
14 21 22 ↑
15 23 24 ↑
16 26 27 ↓
17 29 33 →
18 31 32 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 34 Watson-Crick/Watson-Crick cis
2 2 33 Watson-Crick/O2' ?
3 4 13 Watson-Crick/Watson-Crick cis
4 6 11 Watson-Crick/Watson-Crick cis y
5 8 9 Watson-Crick/Watson-Crick cis y
6 15 29 Hoogsteen/Watson-Crick cis
7 16 17 Watson-Crick/Watson-Crick cis
8 16 26 O2'/Hoogsteen ?
9 19 26 O2'/Bifurcated ?
10 19 27 Hoogsteen/Sugar trans y
11 20 24 Bifurcated/O2' ?
12 21 24 O2'/Bifurcated trans y
13 22 23 Watson-Crick/Watson-Crick cis
14 28 33 Hoogsteen/Watson-Crick trans
15 29 32 O2'/Watson-Crick ?
16 30 31 Watson-Crick/Watson-Crick cis
17 30 34 O2'/Bifurcated ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters