Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'5-6-Internal Loop pdb2v48FA.n407-418
Source: [PDB-id:chain] 2v48:A (&rarr PDB)
Source: Information STRUCTURE OF THE RIBOSOME RECYCLING FACTOR BOUND TO THE THERMUS THERMOPHILUS 70S RIBOSOME WITH MRNA, ASL-PHE AND TRNA-FMET (PART 3 OF 4). THIS FILE CONTAINS THE 30S SUBUNIT, MRNA, P-SITE ASL, E-SITE TRNA AND RRF FOR MOLECULE 2.
Source: Compound 16S RRNA
FLIPPED INTERNAL
Source: Resolution 3.8 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GUAAA_-_GAAGAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		5: C2'-endo, 6: C4'-exo, 11: C2'-endo, 12: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		13: 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 6 7 &larr
7 8 9 ↑
8 9 10 ↑
9 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/Bifurcated trans y
3 3 14 O2'/Watson-Crick ?
4 4 10 Watson-Crick/Hoogsteen trans y
5 6 9 Hoogsteen/Hoogsteen trans y
6 6 10 Bifurcated/O2' ?
7 6 11 O2'/Bifurcated ?
8 7 8 Watson-Crick/Watson-Crick cis
9 11 13 Sugar/Hoogsteen trans y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters