Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-2-2-0-5-Multiloop pdb1vsp1w.m603-1286
Source: [PDB-id:chain] 1vsp:w (&rarr PDB)
Source: Information INTERACTIONS AND DYNAMICS OF THE SHINE-DALGARNO HELIX IN THE 70S RIBOSOME. THIS FILE, 1VSP, CONTAINS THE 50S RIBOSOME SUBUNIT. 30S RIBOSOME SUBUNIT IS IN THE FILE 2QNH
Source: Compound 23S LARGE SUBUNIT RIBOSOMAL RNA
Source: Resolution 3.83 ANGSTROMS.
Position (608, 1281), (613, 694), (697, 835), (838, 1219), (1220, 1275)
Primary structure ('_': anchors) _GACU_-_GA_-_UU_-__-_CGAAU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 8: C2'-exo, 9: C2'-exo, 14: C4'-exo, 17: C3'-exo, 18: C2'-endo, 19: C3'-exo, 20: C3'-exo, 23: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 18 &larr
3 4 10 →
4 5 6 ↑
5 7 9 &larr
6 8 9 ↑
7 14 17 ↓
8 15 16 ↑
9 19 20 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 23 Watson-Crick/Watson-Crick cis
2 2 20 O2'/Watson-Crick ?
3 2 21 Hoogsteen/Sugar trans
4 3 11 O2'/Watson-Crick trans y
5 3 18 Bifurcated/O2' trans
6 6 7 Watson-Crick/Watson-Crick cis
7 7 9 O2'/Hoogsteen ?
8 10 11 Watson-Crick/Watson-Crick cis
9 12 13 Watson-Crick/O2' ?
10 12 20 Bifurcated/O2' ?
11 14 15 Watson-Crick/Watson-Crick cis
12 16 17 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters