Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2i2pFA.n402-432
Source: [PDB-id:chain] 2i2p:A (&rarr PDB)
Source: Information CRYSTAL STRUCTURE OF RIBOSOME WITH MESSENGER RNA AND THE ANTICODON STEM-LOOP OF P-SITE TRNA. THIS FILE CONTAINS THE 30S SUBUNIT OF ONE 70S RIBOSOME. THE ENTIRE CRYSTAL STRUCTURE CONTAINS TWO 70S RIBOSOMES AND IS DESCRIBED IN REMARK 400.
Source: Compound 16S RIBOSOMAL RNA
FLIPPED INTERNAL
Source: Resolution 3.22 ANGSTROMS.
Position (405, 429), (412, 423)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-endo, 6: C2'-endo, 11: C4'-exo, 12: C2'-endo, 13: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		9: syn, 12: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 2 3 ↑
3 3 4 ↑
4 3 10 →
5 4 6 →
6 5 13 →
7 5 14 &larr
8 6 7 &larr
9 8 9 →
10 9 10 &larr
11 11 13 ↑
12 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/Sugar trans
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
7 5 11 O2'/Bifurcated ?
8 5 14 O2'/Hoogsteen ?
9 6 10 Bifurcated/O2' ?
10 6 11 Bifurcated/O2' ?
11 7 8 Watson-Crick/Watson-Crick cis
12 11 13 O2'/Sugar ?
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters