Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'19-Hairpin pdb3df21B.e188-208
Source: [PDB-id:chain] 3df2:B (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH HYGROMYCIN B. THIS FILE CONTAINS THE 50S SUBUNIT OF THE FIRST 70S RIBOSOME. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.50 ANGSTROMS.
Position (188, 208)
Primary structure ('_': anchors) _GAACUGAAACAUCUAAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		9: C2'-endo, 12: C2'-endo, 17: C2'-endo, 18: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		9: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 18 &larr
3 3 4 ↑
4 3 20 →
5 4 5 ↑
6 5 6 ↑
7 6 7 ↑
8 7 8 ↑
9 8 11 &larr
10 10 11 ↑
11 13 14 ↑
12 14 15 ↑
13 15 16 ↑
14 16 17 &larr
15 17 19 →
16 20 21 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 21 Watson-Crick/Watson-Crick cis
2 2 18 O2'/Watson-Crick ?
3 2 19 O2'/Watson-Crick ?
4 2 20 Hoogsteen/Sugar trans
5 3 18 Bifurcated/O2' ?
6 3 19 Watson-Crick/Hoogsteen trans
7 4 17 Hoogsteen/Hoogsteen trans
8 5 16 O2'/Bifurcated trans y
9 6 15 Watson-Crick/Watson-Crick cis
10 7 14 Watson-Crick/Watson-Crick cis
11 8 10 O2'/Hoogsteen ?
12 8 12 O2'/Bifurcated ?
13 18 19 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters