Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'8-5-Internal Loop pdb1j5aFA.n646-767
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 (640, 776), (646, 767)
Primary structure ('_': anchors) _AGAUAGCU_-_CGAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		None
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		13: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 5 6 ↑
3 5 14 →
4 5 15 &larr
5 6 7 ↑
6 9 10 &larr
7 11 12 ↑
8 15 16 ↑
9 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 4 Bifurcated/O2' ?
3 3 15 Watson-Crick/Watson-Crick cis
4 6 14 Watson-Crick/Hoogsteen trans y
5 7 9 O2'/Sugar ?
6 7 13 Watson-Crick/Watson-Crick trans y
7 9 12 Watson-Crick/Watson-Crick trans y
8 10 11 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters