Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'27-Segment pdb2uxb1A.i1133-1161
Source: [PDB-id:chain] 2uxb:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF AN EXTENDED TRNA ANTICODON STEM LOOP IN COMPLEX WITH ITS COGNATE MRNA GGGU IN THE CONTEXT OF THE THERMUS THERMOPHILUS 30S SUBUNIT.
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.1 ANGSTROMS.
Position (1133, 1161)
Primary structure ('_': anchors) _GACUGCCCGCGAAAGCGGGAGGAAGGA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C4'-exo, 5: C2'-endo, 26: C2'-endo, 27: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn, 26: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 25 &larr
3 3 26 →
4 4 6 →
5 5 27 ↓
6 6 7 ↑
7 8 9 ↑
8 8 20 →
9 10 11 ↑
10 10 18 →
11 11 12 ↑
12 13 14 ↑
13 14 15 ↑
14 16 17 ↑
15 18 19 ↑
16 19 20 ↑
17 20 21 ↑
18 21 22 ↑
19 22 23 ↑
20 24 25 ↑
21 26 27 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 2 24 Watson-Crick/Sugar trans
2 2 25 Watson-Crick/O2' ?
3 3 23 Sugar/Watson-Crick trans
4 4 26 Watson-Crick/Watson-Crick cis
5 6 27 Watson-Crick/Hoogsteen cis
6 7 20 Watson-Crick/Watson-Crick cis
7 8 19 Bifurcated/Watson-Crick cis
8 11 16 Watson-Crick/Watson-Crick cis
9 12 14 O2'/Sugar ?
10 12 15 O2'/Bifurcated ?
11 22 26 Hoogsteen/Watson-Crick trans
12 23 25 Hoogsteen/O2' ?
13 23 26 O2'/Bifurcated ?
14 26 27 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters