Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-4-Internal Loop pdb2j01FA.n859-929
Source: [PDB-id:chain] 2j01:A (&rarr PDB)
Source: Information STRUCTURE OF THE THERMUS THERMOPHILUS 70S RIBOSOME COMPLEXED WITH MRNA, TRNA AND PAROMOMYCIN (PART 2 OF 4). THIS FILE CONTAINS THE 50S SUBUNIT FROM MOLECULE I.
Source: Compound 23S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 2.80 ANGSTROMS.
Position (867, 921), (872, 915)
Primary structure ('_': anchors) _CCGAA_-_GUAG_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C4'-exo, 7: C2'-endo, 9: C2'-exo, 12: C2'-endo, 13: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		11: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 10 →
4 4 5 ↑
5 8 9 ↑
6 9 10 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 3 11 Hoogsteen/Hoogsteen trans
3 3 12 O2'/Bifurcated ?
4 4 10 O2'/Bifurcated trans
5 4 11 Watson-Crick/O2' ?
6 5 9 Watson-Crick/Watson-Crick cis
7 6 7 Hoogsteen/Bifurcated cis y
8 7 8 Watson-Crick/Watson-Crick cis
9 11 12 Watson-Crick/Sugar cis
10 12 13 C/O2' ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters