Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'3-1-Internal Loop pdb1vq710.n2577-2631
Source: [PDB-id:chain] 1vq7:0 (&rarr PDB)
Source: Information THE STRUCTURE OF THE TRANSITION STATE ANALOGUE "DCA" BOUND TO THE LARGE RIBOSOMAL SUBUNIT OF HALOARCULA MARISMORTUI
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 2.50 ANGSTROMS.
Position (2581, 2627), (2585, 2625)
Primary structure ('_': anchors) _CAC_-_C_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C3'-exo, 6: C2'-endo, 7: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 3 4 ↑
2 4 5 ↑
3 6 8 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 8 Watson-Crick/Watson-Crick cis
2 2 4 Hoogsteen/Bifurcated cis y
3 2 6 Hoogsteen/Watson-Crick trans
4 4 8 O2'/Watson-Crick cis y
5 5 6 Watson-Crick/Watson-Crick cis
6 6 7 O2'/Sugar ?
7 6 8 Hoogsteen/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters