Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-0-1-4-Multiloop pdb3d0u1A.m1-160
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 (6, 155), (11, 75), (79, 110), (111, 137), (139, 150)
Primary structure ('_': anchors) _AGGC_-_CGA_-__-_G_-_AGAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C2'-endo, 4: C1'-exo, 5: C3'-exo, 8: C2'-endo, 9: C1'-exo, 18: C3'-exo, 19: O4'-endo, 20: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn, 4: syn, 5: syn, 9: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 &larr
3 4 6 ↑
4 9 11 ↑
5 13 15 →
6 15 16 ↑
7 17 18 ↑
8 19 21 →
9 21 22 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 22 Watson-Crick/Watson-Crick cis
2 2 21 Watson-Crick/Watson-Crick cis
3 3 8 O2'/Watson-Crick ?
4 3 19 Watson-Crick/Hoogsteen trans
5 4 8 Watson-Crick/Watson-Crick cis
6 6 7 Watson-Crick/Watson-Crick cis
7 6 10 Watson-Crick/O2' trans
8 9 19 Bifurcated/O2' ?
9 11 12 Watson-Crick/Watson-Crick cis
10 13 14 Watson-Crick/Watson-Crick cis
11 15 18 Watson-Crick/Watson-Crick cis
12 15 19 Hoogsteen/Sugar trans y
13 16 17 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters