Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'16-Hairpin pdb3d0u1A.e35-52
Source: [PDB-id:chain] 3d0u:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF LYSINE RIBOSWITCH BOUND TO LYSINE
Source: Compound LYSINE RIBOSWITCH RNA
Source: Resolution 2.80 ANGSTROMS.
Position (35, 52)
Primary structure ('_': anchors) _AUCAGGGGAGGAAUCG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C1'-endo, 2: C2'-endo, 3: C2'-endo, 4: O4'-endo, 5: C1'-exo, 6: C2'-endo, 11: C2'-exo, 12: C2'-exo, 15: C3'-exo, 16: C3'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		4: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 4 ↓
3 7 8 ↑
4 8 9 ↑
5 9 10 ↑
6 10 11 ↑
7 11 12 ↑
8 12 13 ↑
9 13 14 ↑
10 15 17 →
11 17 18 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 18 Watson-Crick/Watson-Crick cis
2 2 4 Hoogsteen/Sugar cis y
3 3 15 Watson-Crick/Watson-Crick trans
4 4 17 Watson-Crick/Watson-Crick cis
5 5 13 Watson-Crick/Hoogsteen trans
6 6 8 Hoogsteen/Watson-Crick cis y
7 6 9 Hoogsteen/Watson-Crick cis y
8 6 10 Hoogsteen/Watson-Crick cis y
9 14 17 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters