Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb1k011A.n821-878
Source: [PDB-id:chain] 1k01:A (&rarr PDB)
Source: Information STRUCTURAL BASIS FOR THE INTERACTION OF ANTIBIOTICS WITH THE PEPTIDYL TRANSFERASE CENTER IN EUBACTERIA
Source: Compound 23S RRNA
Source: Resolution 3.50 ANGSTROMS.
Position (825, 874), (831, 867)
Primary structure ('_': anchors) _UGUAG_-_CCGAAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		3: C4'-exo, 12: C2'-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 3 11 &larr
3 5 6 ↑
4 5 12 →
5 6 7 ↑
6 9 10 ↑
7 10 11 ↑
8 13 14 →
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 3 11 Watson-Crick/O2' ?
3 5 11 Sugar/Hoogsteen trans y
4 6 10 Watson-Crick/Watson-Crick cis
5 7 8 Watson-Crick/Watson-Crick cis
6 8 9 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters