Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-3-Internal Loop pdb1vq710.n2733-2752
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 (2728, 2756), (2733, 2752)
Primary structure ('_': anchors) _GUGC_-_UAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		2: C2'-endo, 3: C2'-endo, 8: C2'-endo, 9: 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 3 10 →
3 4 5 ↑
4 5 6 ↑
5 7 8 &larr
6 10 11 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 11 Watson-Crick/Watson-Crick cis
2 2 10 Hoogsteen/Sugar trans y
3 4 8 Watson-Crick/O2' ?
4 4 10 O2'/Hoogsteen ?
5 5 8 Hoogsteen/Hoogsteen trans y
6 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters