Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-8-Internal Loop pdb3cf51X.n612-750
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
Source: Resolution 3.30 ANGSTROMS.
Position (613, 749), (619, 740)
Primary structure ('_': anchors) _CGAAA_-_AGAUAGCU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C4'-exo, 5: C4'-exo, 10: C4'-exo, 13: C4'-exo, 14: O4'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 3 13 &larr
3 4 5 &larr
4 4 13 →
5 6 7 ↑
6 6 11 →
7 8 9 &larr
8 11 12 ↑
9 12 13 ↑
10 16 17 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 10 Bifurcated/O2' ?
2 1 17 Watson-Crick/Watson-Crick cis
3 2 16 Watson-Crick/Watson-Crick cis y
4 3 15 Watson-Crick/Watson-Crick cis
5 4 12 Watson-Crick/Hoogsteen trans
6 6 9 Watson-Crick/Watson-Crick trans y
7 7 8 Watson-Crick/Watson-Crick cis
8 7 9 Watson-Crick/Watson-Crick trans y
9 14 15 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters