Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-8-Internal Loop pdb1jzy1A.n639-777
Source: [PDB-id:chain] 1jzy: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 (640, 776), (646, 767)
Primary structure ('_': anchors) _CGAAA_-_AGAUAGCU_
Bases with unusual sugar puckers
(Standard: C3'-endo)
None
Bases with unusual glycosidic-bond configuration
(Standard: anti)
5: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2
2 2 3
3 3 13 &larr
4 4 5 &larr
5 4 13
6 6 7
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 17 Watson-Crick/Watson-Crick cis
2 3 15 Watson-Crick/Watson-Crick cis
3 4 12 Watson-Crick/Hoogsteen trans
4 5 11 Watson-Crick/Watson-Crick trans y
5 6 9 Watson-Crick/Watson-Crick trans y
6 7 8 Watson-Crick/Watson-Crick cis
7 9 11 O2'/Sugar ?
8 14 15 Bifurcated/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters