Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2b9mFA.n397-427
Source: [PDB-id:chain] 2b9m:A (&rarr PDB)
Source: Information 30S RIBOSOMAL SUBUNIT, TRNAS, MRNA AND RELEASE FACTOR RF2 FROM A CRYSTAL STRUCTURE OF THE WHOLE RIBOSOMAL COMPLEX. THIS FILE CONTAINS THE 30S RIBOSOMAL SUBUNIT, TRNAS, MRNA AND RELEASE FACTOR RF2 FROM A CRYSTAL STRUCTURE OF THE WHOLE RIBOSOMAL COMPLEX". THE ENTIRE CRYSTAL STRUCTURE CONTAINS ONE 70S RIBOSOME, TRNAS, MRNA AND RELEASE FACTOR RF2 AND IS DESCRIBED IN REMARK 400.
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 6.76 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: O4'-endo, 6: C4'-exo, 11: C4'-exo, 12: C4'-exo, 14: C2'-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 6 →
5 5 13 →
6 6 7 &larr
7 8 9 ↑
8 9 10 ↑
9 11 13 ↑
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 Bifurcated/O2' trans y
3 3 5 Hoogsteen/Watson-Crick cis
4 3 14 O2'/Watson-Crick ?
5 4 10 Watson-Crick/Hoogsteen trans
6 4 13 Hoogsteen/Watson-Crick trans y
7 6 9 Watson-Crick/Hoogsteen trans y
8 6 10 Bifurcated/O2' ?
9 6 11 O2'/Bifurcated ?
10 7 8 Watson-Crick/Watson-Crick cis y
11 11 12 Hoogsteen/O2' ?
12 11 13 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters