Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-8-Internal Loop pdb2vhp1A.n1405-1487
Source: [PDB-id:chain] 2vhp:A (&rarr PDB)
Source: Information STRUCTURE OF PDF BINDING HELIX IN COMPLEX WITH THE RIBOSOME (PART 4 OF 4)
Source: Compound 16S RIBOSOMAL RNA
Source: Resolution 3.74 ANGSTROMS.
Position (1408, 1484), (1417, 1475)
Primary structure ('_': anchors) _AUGGGAGU_-_AUGACUGG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		1: C2'-exo, 4: C4'-exo, 6: C2'-exo, 8: C2'-exo, 9: C2'-exo, 11: C2'-exo, 12: C2'-exo, 13: C4'-exo, 14: C2'-exo, 15: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 20 →
2 4 5 ↑
3 4 18 →
4 5 6 ↑
5 6 14 &larr
6 7 15 →
7 8 14 →
8 10 12 →
9 12 13 ↑
10 13 14 ↑
11 15 16 ↑
12 16 17 ↑
13 18 19 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 20 Watson-Crick/Watson-Crick cis
2 3 18 Watson-Crick/Watson-Crick cis
3 5 16 Watson-Crick/Watson-Crick cis
4 6 15 Bifurcated/O2' ?
5 7 14 O2'/Bifurcated ?
6 8 13 Watson-Crick/Watson-Crick cis y
7 10 11 Watson-Crick/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters