Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb1j5aFA.n821-878
Source: [PDB-id:chain] 1j5a:A (&rarr PDB)
Source: Information STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA
Source: Compound 23S RRNA
FLIPPED INTERNAL
Source: Resolution 3.50 ANGSTROMS.
Position (825, 874), (831, 867)
Primary structure ('_': anchors) _CCGAAG_-_UGUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 13: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 →
3 4 11 →
4 5 6 ↑
5 5 13 &larr
6 6 7 ↑
7 9 10 ↑
8 10 11 ↑
9 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 5 11 Sugar/Hoogsteen trans y
3 5 13 Watson-Crick/O2' ?
4 6 10 Watson-Crick/Watson-Crick cis
5 7 8 Hoogsteen/Sugar cis y
6 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters