Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'4-5-Internal Loop pdb2b66FA.n234-242
Source: [PDB-id:chain] 2b66:A (&rarr PDB)
Source: Information 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF1, 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
FLIPPED INTERNAL
Source: Resolution 5.90 ANGSTROMS.
Position (228, 247), (234, 242)
Primary structure ('_': anchors) _GAAA_-_GAGUA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-exo, 9: C2'-exo, 10: O4'-endo, 11: C1'-exo, 13: 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 2 3 ↑
3 3 4 ↑
4 4 8 →
5 5 6 ↑
6 5 10 &larr
7 7 8 ↑
8 9 11 →
9 11 12 &larr
10 12 13 ↑
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 1 13 Watson-Crick/Watson-Crick cis
2 2 12 Bifurcated/O2' trans y
3 3 11 O2'/Bifurcated ?
4 4 9 Hoogsteen/Watson-Crick trans y
5 5 8 O2'/Bifurcated ?
6 5 9 Bifurcated/O2' ?
7 5 10 Bifurcated/O2' ?
8 6 7 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters