Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2aarF0.n222-230
Source: [PDB-id:chain] 2aar:0 (&rarr PDB)
Source: Information STRUCTURE OF TRIGGER FACTOR BINDING DOMAIN IN BIOLOGICALLY HOMOLOGOUS COMPLEX WITH EUBACTERIAL RIBOSOME.
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.50 ANGSTROMS.
Position (215, 236), (222, 230)
Primary structure ('_': anchors) _GAACC_-_UUAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		11: C4'-exo, 12: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 4 5 ↑
3 5 9 →
4 6 7 ↑
5 6 11 &larr
6 8 9 ↑
7 10 12 →
8 12 13 &larr
9 13 14 ↑
10 14 15 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 15 Watson-Crick/Watson-Crick cis
2 2 14 Hoogsteen/Watson-Crick trans y
3 3 13 Bifurcated/O2' ?
4 4 12 Hoogsteen/Hoogsteen trans
5 5 10 Hoogsteen/Watson-Crick trans
6 5 11 O2'/Bifurcated ?
7 6 9 Sugar/Hoogsteen trans y
8 6 10 Watson-Crick/O2' ?
9 6 11 Watson-Crick/O2' ?
10 7 8 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters