Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'6-5-Internal Loop pdb2v461A.n397-427
Source: [PDB-id:chain] 2v46: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 1 OF 4). THIS FILE CONTAINS THE 30S SUBUNIT, MRNA, P-SITE ASL, E-SITE TRNA AND RRF FOR MOLECULE 1.
Source: Compound 16S RRNA
Source: Resolution 3.8 ANGSTROMS.
Position (400, 424), (407, 418)
Primary structure ('_': anchors) _GAAGAA_-_GUAAA_
Bases with unusual sugar puckers
(Standard: C3'-endo) 		4: C2'-endo, 5: C2'-endo, 10: C4'-exo, 11: C2'-endo
Bases with unusual glycosidic-bond configuration
(Standard: anti) 		3: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2 ↑
2 6 7 ↑
3 6 13 →
4 7 8 ↑
5 9 10 &larr
6 10 12 →
7 12 13 ↑
8 13 14 ↑
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 13 O2'/Watson-Crick ?
3 2 14 Hoogsteen/Bifurcated trans y
4 3 5 Sugar/Hoogsteen trans y
5 5 10 O2'/Bifurcated ?
6 6 10 Bifurcated/O2' ?
7 6 12 Watson-Crick/Hoogsteen trans y
8 7 10 Hoogsteen/Hoogsteen trans y
9 8 9 Watson-Crick/Watson-Crick cis
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters