Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb3cf5FX.n649-664
Source: [PDB-id:chain] 3cf5:X (&rarr PDB)
Source: Information THIOPEPTIDE ANTIBIOTIC THIOSTREPTON BOUND TO THE LARGE RIBOSOMAL SUBUNIT OF DEINOCOCCUS RADIODURANS
Source: Compound RRNA-23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.30 ANGSTROMS.
Position (643, 671), (649, 664)
Primary structure ('_': anchors) _CGGAGG_-_UGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
3: C4'-exo, 5: C4'-exo, 6: C2'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
2: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 3
2 3 4
3 4 12
4 5 6
5 5 13 &larr
6 6 7
7 7 8
8 9 10
9 10 11
10 11 12
11 13 14
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 3 14 Watson-Crick/Watson-Crick cis
3 5 13 Bifurcated/O2' ?
4 6 11 O2'/Bifurcated trans
5 6 12 Watson-Crick/O2' ?
6 7 10 Watson-Crick/Watson-Crick cis y
7 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters