Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-5-Internal Loop pdb1y69F0.n641-762
Source: [PDB-id:chain] 1y69:0 (&rarr PDB)
Source: Information RRF DOMAIN I IN COMPLEX WITH THE 50S RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.33 ANGSTROMS.
Position (635, 771), (641, 762)
Primary structure ('_': anchors) _AGAUAGCU_-_CGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
2: C4'-exo, 4: C4'-exo, 5: C4'-exo, 8: C2'-exo, 13: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2
2 2 15
3 5 6
4 5 14
5 5 15 &larr
6 6 7
7 7 12
8 11 12
9 13 14 &larr
10 16 17
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 17 Watson-Crick/Watson-Crick cis
2 3 15 Watson-Crick/Watson-Crick cis
3 6 14 Watson-Crick/Hoogsteen trans
4 7 13 Watson-Crick/Watson-Crick trans y
5 8 9 O2'/Sugar ?
6 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters