Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2b9n1A.n2373-2414
Source: [PDB-id:chain] 2b9n:A (&rarr PDB)
Source: Information 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF2, TRNAS AND MRNA BOUND TO THE RIBOSOME. THIS FILE CONTAINS THE 50S SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF1, TRNAS AND MRNA BOUND TO THE RIBOSOME AND IS DESCRIBED IN REMARK 400.
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 6.76 ANGSTROMS.
Position (2375, 2412), (2381, 2405)
Primary structure ('_': anchors) _GAUCU_-_AGGUUU_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-exo, 9: C2'-exo, 10: C2'-exo, 11: C2'-endo, 12: C4'-exo, 13: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		None
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 2 11 &larr
2 4 5 ↑
3 6 10 →
4 8 9 ↑
5 9 10 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 2 Bifurcated/Bifurcated cis
2 1 15 Watson-Crick/Watson-Crick cis
3 2 3 C/O2' ?
4 2 11 O2'/Watson-Crick ?
5 3 14 Watson-Crick/Bifurcated cis y
6 4 13 Watson-Crick/Watson-Crick cis
7 4 14 Hoogsteen/Watson-Crick cis y
8 5 10 Watson-Crick/Watson-Crick cis y
9 7 8 Watson-Crick/Watson-Crick cis
10 14 15 C/Watson-Crick cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters